Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 164 of 352
Found at i:53806177 original size:10 final size:10
Alignment explanation
Indices: 53806164--53806202 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
53806154 ATATATGAAT
53806164 ATATCATGGC
1 ATATCATGGC
53806174 ATATCATGTGC
1 ATATCATG-GC
*
53806185 ATATCATTGC
1 ATATCATGGC
53806195 ATATCATG
1 ATATCATG
53806203 TACAGAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:53806190 original size:21 final size:21
Alignment explanation
Indices: 53806164--53806203 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
53806154 ATATATGAAT
53806164 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
*
53806185 ATATCATTGCATATCATGT
1 ATATCATGGCATATCATGT
53806204 ACAGAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:53806270 original size:25 final size:25
Alignment explanation
Indices: 53806242--53806292 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
53806232 ATAGCATATC
* *
53806242 CCTAAGAGTATAATGGTCATTTTCA
1 CCTAAGAGCAAAATGGTCATTTTCA
* *
53806267 CCTAGGGGCAAAATGGTCATTTTCA
1 CCTAAGAGCAAAATGGTCATTTTCA
53806292 C
1 C
53806293 ATTATAGGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (25 bp):
CCTAAGAGCAAAATGGTCATTTTCA
Found at i:53809756 original size:40 final size:40
Alignment explanation
Indices: 53809661--53809798 Score: 159
Period size: 40 Copynumber: 3.5 Consensus size: 40
53809651 CTTTTCAGGT
* * * *
53809661 CAAATCCTACCCGCCTTAAGTTACCGTAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * *
53809701 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * ** *
53809741 CAAATCCTATCCACTTTGAGGTATTATAGTGAAACAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
*
53809781 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
53809799 TATTCTCGAG
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
Found at i:53814928 original size:5 final size:5
Alignment explanation
Indices: 53814920--53814952 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
53814910 AAATAAAAAA
53814920 TATTT TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TATTT TAT
53814953 AGTTGGCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:53820145 original size:46 final size:44
Alignment explanation
Indices: 53820049--53820222 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 44
53820039 ACATCTTGTA
* * * * *
53820049 GCCGATGCATATCCCAGACATGTCTTATATTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-C-TCTCAAT
*
53820095 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TC-TCTCAAT
*
53820141 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTT-TCAT-AATGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCTC-TCAA--T
* *
53820188 GGCCGATGCATGTCCCAGATATGTTTTACACTGGC
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGC
53820223 ACACAAATAA
Statistics
Matches: 109, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
45 4 0.04
46 57 0.52
47 28 0.26
48 20 0.18
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCTCTCAAT
Found at i:53820204 original size:140 final size:143
Alignment explanation
Indices: 53819858--53820217 Score: 335
Period size: 140 Copynumber: 2.5 Consensus size: 143
53819848 GGGTATAATA
* *
53819858 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAA-GT--CAATGCCATGTCCC
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCT--TACAT-AATGTGCCGATG-CATGTCCC
* * *
53819920 GGGCATGGTCTTACATTGACTATCGAAATCGAGGCTGATGCCATGTCCCAGACATGGTCTTACAC
62 AGACAT-GTCTTACATTGACTATCGAAATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACAC
**
53819985 TAGCTCTCACATATCCGTG
126 TAGCTCT-ACATATCAATG
* * * * * * * ** *
53820004 TCAACGTCATGTCCCAGACATGGCCTTACACTGAC--ACATCTTGTAGCCGATGCATATCCCAGA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATAATGT-GCCGATGCATGTCCCAGA
* * **
53820067 CATGTCTTATATTGGCT-TAC-ATCTCGAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG
65 CATGTCTTACATTGACTAT-CGAAATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
* *
53820128 CTCT-CGTCTCAATG
129 CTCTACATATCAATG
*
53820142 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTTCATAATGTGGCCGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATAATGT-GCCGATGCATGTCCCAGA
* *
53820207 TATGTTTTACA
65 CATGTCTTACA
53820218 CTGGCACACA
Statistics
Matches: 169, Mismatches: 38, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
138 34 0.20
140 47 0.28
141 14 0.08
142 18 0.11
143 13 0.08
144 11 0.07
145 4 0.02
146 28 0.17
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (143 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATAATGTGCCGATGCATGTCCCAGAC
ATGTCTTACATTGACTATCGAAATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
CTACATATCAATG
Found at i:53821915 original size:25 final size:25
Alignment explanation
Indices: 53821870--53821918 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
53821860 TGGTTGACAC
* * *
53821870 GGCCTTGAACATGGGCGTGTTACAT
1 GGCCTTGAACACGAGCATGTTACAT
53821895 GGCCTTGAACACGAGCATGTTACA
1 GGCCTTGAACACGAGCATGTTACA
53821919 CTCCATGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (25 bp):
GGCCTTGAACACGAGCATGTTACAT
Found at i:53826697 original size:58 final size:58
Alignment explanation
Indices: 53826607--53826722 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
53826597 CTTGAGAGTA
*
53826607 AACCAAAATGTCATCTATAAATACCACCACAAACTTGTCCAAATACAGGCTAAAAATT
1 AACCAAAATGTCATCCATAAATACCACCACAAACTTGTCCAAATACAGGCTAAAAATT
53826665 AACCAAAATGTCATCCATAAATACCACCACAAACTTGTCCAAATACAGGCTAAAAATT
1 AACCAAAATGTCATCCATAAATACCACCACAAACTTGTCCAAATACAGGCTAAAAATT
53826723 CTGTTCATCA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.47, C:0.25, G:0.07, T:0.22
Consensus pattern (58 bp):
AACCAAAATGTCATCCATAAATACCACCACAAACTTGTCCAAATACAGGCTAAAAATT
Found at i:53833235 original size:49 final size:49
Alignment explanation
Indices: 53833070--53833293 Score: 263
Period size: 49 Copynumber: 4.5 Consensus size: 49
53833060 TGAGGCCGCA
* * * *
53833070 TGTGTAGTGCTAAGTGCAGGCTACTA--TCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGT-GTACCGGATAA-T-TGGTCACG
* * * * **
53833120 GGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
*
53833170 TGTGTAGTACTAAGTGCAGACTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * *
53833219 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
53833268 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
53833294 TGCGTACCAG
Statistics
Matches: 150, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
49 78 0.52
50 65 0.43
51 6 0.04
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:53833242 original size:99 final size:99
Alignment explanation
Indices: 53833068--53833301 Score: 278
Period size: 99 Copynumber: 2.4 Consensus size: 99
53833058 TGTGAGGCCG
*
53833068 CATGTGTAGTGCTAAGTGCAGGCTACTATCGTACCCGAAAACTGTGATCACGGGTGTAGTACTAA
1 CATGTGTAGTACTAAGTGCAGGCTACTATCGTACCCGAAAACTGTGATCACGGGTGTAGTACTAA
* **
53833133 GTGTAGGCTACTACGTGTA-TCAGATGGTTAGGTCA
66 GTGCAGGCTACTACGTGTACT-AGATAATT-GGTCA
* * * * * *
53833168 CGTGTGTAGTACTAAGTGCAGACTACTA-CGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACT
1 CATGTGTAGTACTAAGTGCAGGCTACTATC--GTACCCGAAAACTGTGATCACGGGTGTAGTACT
* *
53833230 AAGTGCAGGCTACTACGTGTACTGGATAATTGGTCG
64 AAGTGCAGGCTACTACGTGTACTAGATAATTGGTCA
*
53833266 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTAT-CGTACC
53833302 AGATAGCTTT
Statistics
Matches: 114, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
98 34 0.30
99 43 0.38
100 28 0.25
101 9 0.08
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (99 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATCGTACCCGAAAACTGTGATCACGGGTGTAGTACTAA
GTGCAGGCTACTACGTGTACTAGATAATTGGTCA
Found at i:53838582 original size:49 final size:49
Alignment explanation
Indices: 53838416--53838638 Score: 292
Period size: 50 Copynumber: 4.5 Consensus size: 49
53838406 TGAGGTCGCA
* * *
53838416 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAA-AACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGAATAA-T-TGGTCACG
* **
53838467 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATT-GGTCACG
53838517 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACG
* *
53838566 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CG-ATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACG
*
53838613 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
53838639 TGCGTACCAG
Statistics
Matches: 156, Mismatches: 12, Indels: 12
0.87 0.07 0.07
Matches are distributed among these distances:
47 36 0.23
48 2 0.01
49 41 0.26
50 46 0.29
51 31 0.20
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACG
Found at i:53838596 original size:99 final size:98
Alignment explanation
Indices: 53838409--53838646 Score: 329
Period size: 99 Copynumber: 2.4 Consensus size: 98
53838399 TCTATTGTGA
* *
53838409 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
**
53838474 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTA-C-GATAATT
* * *
53838509 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGAATAA-T-TGGTCACGTGTGT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAA-AACTGTGATCACGTGTGT
53838571 AGTACTAAGTGCAGGCTACTACGTGTACGATAATT
64 AGTACTAAGTGCAGGCTACTACGTGTACGATAATT
* * *
53838606 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
53838647 AGATAGCTTT
Statistics
Matches: 123, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
96 34 0.28
97 6 0.05
98 1 0.01
99 39 0.32
100 6 0.05
101 37 0.30
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (98 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACGATAATT
Found at i:53845184 original size:27 final size:27
Alignment explanation
Indices: 53845154--53845331 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53845144 ATATTGAGTC
* * * *
53845154 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
53845181 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53845208 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53845236 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53845263 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53845290 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53845317 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53845332 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53845293 original size:82 final size:81
Alignment explanation
Indices: 53845175--53845330 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53845165 TGCTATATAA
* *
53845175 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
53845240 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53845257 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
53845321 CACTTAGTGC
65 CACTTAGTGC
53845331 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53853381 original size:27 final size:27
Alignment explanation
Indices: 53853351--53853528 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53853341 ATATTGAGTC
* * * *
53853351 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
53853378 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53853405 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53853433 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53853460 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53853487 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53853514 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53853529 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53853490 original size:82 final size:81
Alignment explanation
Indices: 53853372--53853527 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53853362 TGCTATATAA
* *
53853372 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
53853437 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53853454 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
53853518 CACTTAGTGC
65 CACTTAGTGC
53853528 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53856734 original size:9 final size:9
Alignment explanation
Indices: 53856720--53856754 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
53856710 TTTAATAAGT
53856720 TAAATTAAC
1 TAAATTAAC
*
53856729 TAAATTAAT
1 TAAATTAAC
*
53856738 TAAACTAAC
1 TAAATTAAC
53856747 TAAATTAA
1 TAAATTAA
53856755 TTTCTTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (9 bp):
TAAATTAAC
Found at i:53856746 original size:18 final size:18
Alignment explanation
Indices: 53856719--53856756 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
53856709 ATTTAATAAG
*
53856719 TTAAATTAACTAAATTAA
1 TTAAACTAACTAAATTAA
53856737 TTAAACTAACTAAATTAA
1 TTAAACTAACTAAATTAA
53856755 TT
1 TT
53856757 TCTTAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAACTAACTAAATTAA
Found at i:53857431 original size:15 final size:15
Alignment explanation
Indices: 53857411--53857441 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53857401 TTCATATGTC
53857411 ATGTAATGCCAATGA
1 ATGTAATGCCAATGA
*
53857426 ATGTAATGTCAATGA
1 ATGTAATGCCAATGA
53857441 A
1 A
53857442 GGGACATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (15 bp):
ATGTAATGCCAATGA
Found at i:53858377 original size:17 final size:17
Alignment explanation
Indices: 53858355--53858389 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
53858345 TATTGTATTT
53858355 TCAGTACAATCTAAAAC
1 TCAGTACAATCTAAAAC
53858372 TCAGTACAATCTAAAAC
1 TCAGTACAATCTAAAAC
53858389 T
1 T
53858390 TTTCCAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (17 bp):
TCAGTACAATCTAAAAC
Found at i:53859332 original size:7 final size:7
Alignment explanation
Indices: 53859322--53859483 Score: 62
Period size: 7 Copynumber: 23.9 Consensus size: 7
53859312 GTAATTAGAG
53859322 TTTAATA
1 TTTAATA
53859329 TTTAATA
1 TTTAATA
53859336 TTTAA-A
1 TTTAATA
53859342 CTTTAATA
1 -TTTAATA
*
53859350 -CTAATA
1 TTTAATA
53859356 TTT-ATA
1 TTTAATA
*
53859362 GTTGAA-A
1 -TTTAATA
53859369 GTTTAATA
1 -TTTAATA
53859377 TTTAATA
1 TTTAATA
*
53859384 TTTAGTA
1 TTTAATA
*
53859391 -TTAGA-G
1 TTTA-ATA
*
53859397 TTTAAGA
1 TTTAATA
* *
53859404 TTTCATG
1 TTTAATA
*
53859411 TTTGAGTA
1 TTT-AATA
53859419 ---AATA
1 TTTAATA
* *
53859423 TTGAAAA
1 TTTAATA
53859430 TTTAGA-A
1 TTTA-ATA
53859437 TTTAATA
1 TTTAATA
*
53859444 TTTAATG
1 TTTAATA
53859451 TTTAA-A
1 TTTAATA
53859457 TTTTAA-A
1 -TTTAATA
53859464 TTTTAATA
1 -TTTAATA
53859472 TTT-ATA
1 TTTAATA
53859478 TTTAAT
1 TTTAAT
53859484 TATAAATAAA
Statistics
Matches: 118, Mismatches: 19, Indels: 36
0.68 0.11 0.21
Matches are distributed among these distances:
4 3 0.03
6 20 0.17
7 89 0.75
8 6 0.05
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (7 bp):
TTTAATA
Found at i:53859398 original size:27 final size:27
Alignment explanation
Indices: 53859322--53859406 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
53859312 GTAATTAGAG
* *
53859322 TTTAATATTTAATATTTAAACTTTAATA
1 TTTAATATTT-ATAGTTAAAGTTTAATA
*
53859350 -CTAATATTTATAGTTGAAAGTTTAATA
1 TTTAATATTTATAGTT-AAAGTTTAATA
* *
53859377 TTTAATATTTAGTA-TTAGAGTTTAAGA
1 TTTAATATTTA-TAGTTAAAGTTTAATA
53859404 TTT
1 TTT
53859407 CATGTTTGAG
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
26 5 0.10
27 30 0.62
28 11 0.23
29 2 0.04
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (27 bp):
TTTAATATTTATAGTTAAAGTTTAATA
Found at i:53860373 original size:16 final size:16
Alignment explanation
Indices: 53860352--53860383 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
53860342 GACTTACCTA
53860352 AATTCTGAGTTAGTCG
1 AATTCTGAGTTAGTCG
53860368 AATTCTGAGTTAGTCG
1 AATTCTGAGTTAGTCG
53860384 CTTGTGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (16 bp):
AATTCTGAGTTAGTCG
Found at i:53860720 original size:20 final size:20
Alignment explanation
Indices: 53860692--53860733 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
53860682 AAGTATGAGG
* *
53860692 AATCGTTACCCTTATGGAGC
1 AATCATTACCCTTACGGAGC
53860712 AATCATTACCCTTACGGAGC
1 AATCATTACCCTTACGGAGC
53860732 AA
1 AA
53860734 CAACAACTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (20 bp):
AATCATTACCCTTACGGAGC
Found at i:53861204 original size:265 final size:263
Alignment explanation
Indices: 53860712--53862359 Score: 1823
Period size: 265 Copynumber: 6.3 Consensus size: 263
53860702 CTTATGGAGC
* *
53860712 AATCATTACCCTTACGGAGCAACAACAACTAGCAAAAAAGGATTAGAAT-GGTATTTGTAATGAT
1 AATCATTACCCTTATGGAGCAACAACAACTAGCAAAAAA-GATTAGAATAAG-ATTTGTAATGAT
* ** * * * *
53860776 CAACGTGAAGGCATGTATGTTTTGGACTATAAATCATGCTTACACAATATTTGGCCTCAGGAAGT
64 CAACATGAAGGCACATATGTCTTGGACTATAAATCATGCTTGCACAACATTTGGCCTCAAGAAGT
* * * * *
53860841 TATCAATACTTAATTTCACCTGTGGATTTACATTCTTCTTCACTCAAATTTCAGTTGAACGTGTG
129 TATCAATACTTAATTTCACCTGTGTAATTACGTTCTTCTTCCCTCAAATTTCGGTTGAACGTGTG
* *** * * * **
53860906 AAAAGAAAAATAAGGTTCTTTCAGTATTATGTTAGGGGCAAATACGAAAACACACTACATAAAGT
194 AAAAGCAAAGGGAGGTTCCTTCAGTATTATGTTAAGGGCAAATACGTAAACACACCGCATAAAGT
53860971 ATGAG
259 ATGAG
* * * *
53860976 AAATCATTACCCTTCTGGAGCAACAACAACTGGCAAAAAATGATTAAAACAAGATTTGTAATGAT
1 -AATCATTACCCTTATGGAGCAACAACAACTAGCAAAAAA-GATTAGAATAAGATTTGTAATGAT
* * * * * * *
53861041 CGACATGAAGGTACATATTTATTGTACTATAATTCATGCTTGCATAACATTTGGCCTCAAGAAGT
64 CAACATGAAGGCACATATGTCTTGGACTATAAATCATGCTTGCACAACATTTGGCCTCAAGAAGT
53861106 TATCAATACTTAATTTCACCTGTGTAATTACGTTCTTCTTCCCTCAAATTTCGGTTGAACGTGTG
129 TATCAATACTTAATTTCACCTGTGTAATTACGTTCTTCTTCCCTCAAATTTCGGTTGAACGTGTG
* * * * **
53861171 AAAAGCAAAGGGAGGTTCCTTTAATAATATGTTAAGGGCAAATGCGTAAACACATTGCATAAAGT
194 AAAAGCAAAGGGAGGTTCCTTCAGTATTATGTTAAGGGCAAATACGTAAACACACCGCATAAAGT
53861236 ATGACG
259 ATGA-G
* * * *
53861242 AATCATTACCCTTCTAGAGCAACAACAACTAGTAAAAAAAGATTAGAACAAGATTTGTAATGATC
1 AATCATTACCCTTATGGAGCAACAACAACTAG-CAAAAAAGATTAGAATAAGATTTGTAATGATC
* *
53861307 AACATGAAAGCACATATGTCTTGGACTATAAATCATGCTTGCACAACATTTGGCCTTAAGAAGTT
65 AACATGAAGGCACATATGTCTTGGACTATAAATCATGCTTGCACAACATTTGGCCTCAAGAAGTT
* * *
53861372 ATCAATACTTAATTTCACCTGTGTAATTACGTTCTTCTTCCCACAAATTTCGATTGACCGTGTGA
130 ATCAATACTTAATTTCACCTGTGTAATTACGTTCTTCTTCCCTCAAATTTCGGTTGAACGTGTGA
* * *
53861437 AAAACAAAGGGAGGTTCCTTCAGTATTATGTTAAAGGG-AAATATGTAAACACATCGCATAAAGT
195 AAAGCAAAGGGAGGTTCCTTCAGTATTATGTT-AAGGGCAAATACGTAAACACACCGCATAAAGT
*
53861501 ATAAG
259 ATGAG
* * * * *
53861506 TAATCATCACCCTTATGAAGAAACAACAACTGGCAAAAAAAGATTAGAATAGGATTTGTAATGAT
1 -AATCATTACCCTTATGGAGCAACAACAACTAGC-AAAAAAGATTAGAATAAGATTTGTAATGAT
* * *
53861571 CAACGTGAAGGCACGTATGTCTTGGACTATAAATCATGCTTGCACAACATTTGGCCTCAAGAACT
64 CAACATGAAGGCACATATGTCTTGGACTATAAATCATGCTTGCACAACATTTGGCCTCAAGAAGT
* * ** * * ** *
53861636 TATCAATACTTAATTTCACATGTGTAATTACGTTCTTTTTCTTTTAAATTTTGGTTGAATATGTC
129 TATCAATACTTAATTTCACCTGTGTAATTACGTTCTTCTTCCCTCAAATTTCGGTTGAACGTGTG
* * **
53861701 AAAAGCAATA-GGAGGTTCCCTCAGTATTATGTTAAGGGGAAATATATAAACACACCGCATAAAG
194 AAAAGCAA-AGGGAGGTTCCTTCAGTATTATGTTAAGGGCAAATACGTAAACACACCGCATAAAG
53861765 TATGAGG
258 TATGA-G
* * * * * * * *
53861772 AATTATAATCCTTATGAAGGAACAACAACTAGTAAAGAAAGATTAGAA-AAAATTTGTAATGATT
1 AATCATTACCCTTATGGAGCAACAACAACTAGCAAA-AAAGATTAGAATAAGATTTGTAATGATC
* * ** * *
53861836 AACATGAAGGTACGTATGTCTCAGACTATAAATCATGCTTACACAACATTTGGCCTTAAGAAGTT
65 AACATGAAGGCACATATGTCTTGGACTATAAATCATGCTTGCACAACATTTGGCCTCAAGAAGTT
* * * ** ** *
53861901 ATCAATACCTAATTTCACCTGTGGATTTATATTCTTCTTTGCTCAAAGTTT-GGTTGAACCTGTG
130 ATCAATACTTAATTTCACCTGTGTAATTACGTTCTTCTTCCCTCAAA-TTTCGGTTGAACGTGTG
** * * * ** * *
53861965 AAAAGCAAAAAGAGGTTTCC-TCAGTGTTATGTTAAGAGCAAATATGTAAACATGCCACAAAAAG
194 AAAAGCAAAGGGAGG-TTCCTTCAGTATTATGTTAAGGGCAAATACGTAAACACACCGCATAAAG
53862029 TATGATG
258 TATGA-G
* * * * * *
53862036 AATCATTACCCTTATAGAGGAACAACAACTAGAAAAAAAATATTAAAATAAGATTTCTAATGATC
1 AATCATTACCCTTATGGAGCAACAACAACTAG-CAAAAAAGATTAGAATAAGATTTGTAATGATC
** * *
53862101 AACATGAAGGCATGTCTGTCTTAGACTATAAATCA----TG-----C--TT-G-CTCAAGAAGTT
65 AACATGAAGGCACATATGTCTTGGACTATAAATCATGCTTGCACAACATTTGGCCTCAAGAAGTT
* * *
53862153 ATCAATACTTAATTTCACATGTGTAATTATGTTCTTCTTCCATCAAATTTCGGTTGAACGTGT--
130 ATCAATACTTAATTTCACCTGTGTAATTACGTTCTTCTTCCCTCAAATTTCGGTTGAACGTGTGA
* * * *
53862216 -AA--AAAGGGAGGTTCCCTCATTATTATGTTAAGGGCAAATACGTAAGCACACCGTATAAAGTA
195 AAAGCAAAGGGAGGTTCCTTCAGTATTATGTTAAGGGCAAATACGTAAACACACCGCATAAAGTA
53862278 TGAGG
260 TGA-G
* * * *
53862283 AATTATTACCCTTATGGAGCAACAAAAACTAGCAAAACAAGATTAGAATAACATTTGTAAAGATC
1 AATCATTACCCTTATGGAGCAACAACAACTAGCAAAA-AAGATTAGAATAAGATTTGTAATGATC
*
53862348 AACCTGAAGGCA
65 AACATGAAGGCA
53862360 TAACATTTGG
Statistics
Matches: 1182, Mismatches: 183, Indels: 54
0.83 0.13 0.04
Matches are distributed among these distances:
246 8 0.01
247 108 0.09
249 2 0.00
251 3 0.00
252 60 0.05
253 1 0.00
254 2 0.00
256 1 0.00
261 1 0.00
263 1 0.00
264 216 0.18
265 764 0.65
266 15 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (263 bp):
AATCATTACCCTTATGGAGCAACAACAACTAGCAAAAAAGATTAGAATAAGATTTGTAATGATCA
ACATGAAGGCACATATGTCTTGGACTATAAATCATGCTTGCACAACATTTGGCCTCAAGAAGTTA
TCAATACTTAATTTCACCTGTGTAATTACGTTCTTCTTCCCTCAAATTTCGGTTGAACGTGTGAA
AAGCAAAGGGAGGTTCCTTCAGTATTATGTTAAGGGCAAATACGTAAACACACCGCATAAAGTAT
GAG
Found at i:53863207 original size:24 final size:24
Alignment explanation
Indices: 53863175--53863226 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
53863165 ATTTAATTAG
53863175 ACATAGTTAAGTGCATAGCTTTCC
1 ACATAGTTAAGTGCATAGCTTTCC
53863199 ACATAGTTAAGTGCATAGCTTTCC
1 ACATAGTTAAGTGCATAGCTTTCC
53863223 ACAT
1 ACAT
53863227 TTTTCCATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (24 bp):
ACATAGTTAAGTGCATAGCTTTCC
Found at i:53865894 original size:50 final size:50
Alignment explanation
Indices: 53865840--53865935 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
53865830 GACAAATAAA
* * *
53865840 TACAAGAAAGAAGTAAAAACTATCAAGCCATGGACATAATGATAAAAAAT
1 TACAAGAAAGAAGTAAAAACTATAAAACCATGAACATAATGATAAAAAAT
*
53865890 TACAAGAAAGACGTAAAAACTATAAAACCATGAACATAATGATAAA
1 TACAAGAAAGAAGTAAAAACTATAAAACCATGAACATAATGATAAA
53865936 TAAGGCCCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.18
Consensus pattern (50 bp):
TACAAGAAAGAAGTAAAAACTATAAAACCATGAACATAATGATAAAAAAT
Found at i:53867600 original size:19 final size:19
Alignment explanation
Indices: 53867576--53867617 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
53867566 TTGAACTTGA
* * *
53867576 AAATTGGATCTGAGATCGT
1 AAATTGGACCCGAGATCAT
53867595 AAATTGGACCCGAGATCAT
1 AAATTGGACCCGAGATCAT
53867614 AAAT
1 AAAT
53867618 GGGGTCCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (19 bp):
AAATTGGACCCGAGATCAT
Found at i:53867954 original size:17 final size:17
Alignment explanation
Indices: 53867934--53867996 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
53867924 ATTTTAATAG
*
53867934 ATTTAATATTAAATTAA
1 ATTTAATATTAAATTAT
*
53867951 ATTTAATATTAAAGTGATT
1 ATTTAATATTAAA-TTA-T
53867970 ATCTTAATATTAAATT-T
1 AT-TTAATATTAAATTAT
53867987 ATTTAATATT
1 ATTTAATATT
53867997 TATCTTATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 8 0.20
17 16 0.40
18 2 0.05
19 3 0.08
20 11 0.28
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTTAATATTAAATTAT
Found at i:53872998 original size:113 final size:112
Alignment explanation
Indices: 53872800--53873010 Score: 280
Period size: 113 Copynumber: 1.9 Consensus size: 112
53872790 CGTATGGCAA
* * * *
53872800 GCCATGTAACTCACTGTATTGGCTTTAGGGTCTCACGGGCCAAGGACATAAGCATGTGTCCAGGT
1 GCCATGTAACTCACTGTATTGGCTTTAGGGCCACACGGGCCAAGGACAGAAG-ATGTGTCCAGAT
* * * *
53872865 TGTGTAACTTACTTTTTTGGCTTTGGGGTCACACGGGCGTATGTCCAG
65 TGTGTAACTCACTATTTTGGCTTTAGAGTCACACGGGCGTATGTCCAG
* * * *
53872913 GCCATGTAACTCATTGTTTTGGCTTTAGGGCCACACGGGCCAGGGACACGGATG-TGTGTCCAGA
1 GCCATGTAACTCACTGTATTGGCTTTAGGGCCACACGGGCCAAGGACA--GAAGATGTGTCCAGA
53872977 TTGTGTAACTCACTATTTTGGCTTTAGAGTCACA
64 TTGTGTAACTCACTATTTTGGCTTTAGAGTCACA
53873011 TGACTCGAGC
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
113 82 0.98
115 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (112 bp):
GCCATGTAACTCACTGTATTGGCTTTAGGGCCACACGGGCCAAGGACAGAAGATGTGTCCAGATT
GTGTAACTCACTATTTTGGCTTTAGAGTCACACGGGCGTATGTCCAG
Found at i:53874135 original size:20 final size:20
Alignment explanation
Indices: 53874110--53874168 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
53874100 AAATGCTTCG
53874110 GATTAATCGACTACATTTCA
1 GATTAATCGACTACATTTCA
53874130 GATTAATCGACTACATTTCA
1 GATTAATCGACTACATTTCA
*
53874150 GATTAATCAACTACATTTC
1 GATTAATCGACTACATTTC
53874169 TACTTTTATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (20 bp):
GATTAATCGACTACATTTCA
Found at i:53874456 original size:29 final size:30
Alignment explanation
Indices: 53874411--53874490 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 30
53874401 TAGCTTCACC
**
53874411 TATCAAATTATGAAAAGGGATGGTGACAAA
1 TATCAAACAATGAAAAGGGATGGTGACAAA
* * * *
53874441 TATC-AACAATGAAAAGAGATGGTGGCGAC
1 TATCAAACAATGAAAAGGGATGGTGACAAA
*
53874470 TATCAAATAATGAAAAGGGAT
1 TATCAAACAATGAAAAGGGAT
53874491 AGCTTCGGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 23 0.56
30 18 0.44
ACGTcount: A:0.46, C:0.09, G:0.24, T:0.21
Consensus pattern (30 bp):
TATCAAACAATGAAAAGGGATGGTGACAAA
Found at i:53874503 original size:30 final size:30
Alignment explanation
Indices: 53874293--53874503 Score: 119
Period size: 30 Copynumber: 7.1 Consensus size: 30
53874283 ATCAACGATC
* * * *
53874293 ATCAACTAATGGAAAGGGATAGCCTCGACC
1 ATCAAATAATGAAAAGGGATAGCTTCGACT
** * * *
53874323 ATCAAATTGTGAAAAGGGAT-GGTGACGACC
1 ATCAAATAATGAAAAGGGATAGCT-TCGACT
* * *
53874353 AT-AAACAATGGAAAGGGATAGCTTCGGCT
1 ATCAAATAATGAAAAGGGATAGCTTCGACT
* **
53874382 ATCGAATAATGAAAACAGATAGCTTC-ACCT
1 ATCAAATAATGAAAAGGGATAGCTTCGA-CT
* * * * *
53874412 ATCAAATTATGAAAAGGGAT-GGTGACAAAT
1 ATCAAATAATGAAAAGGGATAGCT-TCGACT
* * * *
53874442 ATC-AACAATGAAAAGAGAT-GGTGGCGACT
1 ATCAAATAATGAAAAGGGATAGCT-TCGACT
*
53874471 ATCAAATAATGAAAAGGGATAGCTTCGGCT
1 ATCAAATAATGAAAAGGGATAGCTTCGACT
53874501 ATC
1 ATC
53874504 GAGCTAGGAA
Statistics
Matches: 134, Mismatches: 39, Indels: 16
0.71 0.21 0.08
Matches are distributed among these distances:
29 44 0.33
30 87 0.65
31 3 0.02
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (30 bp):
ATCAAATAATGAAAAGGGATAGCTTCGACT
Found at i:53874503 original size:89 final size:89
Alignment explanation
Indices: 53874293--53874503 Score: 228
Period size: 89 Copynumber: 2.4 Consensus size: 89
53874283 ATCAACGATC
* * * * * * *
53874293 ATCAACTAATGGAAAGGGATAGCCTCGACCATCAAATTGTGAAAAGGGATGGTGACGACCATAAA
1 ATCAAATAATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACAAACATAAA
* * * *
53874358 CAATGGAAAGGGATAGCTTCGGCT
66 CAATGAAAAGAGATAGCTGCGACT
* ** * *
53874382 ATCGAATAATGAAAACAGATAGCTTC-ACCTATCAAATTATGAAAAGGGATGGTGACAAATATCA
1 ATCAAATAATGAAAAGGGATAGCTTCGA-CTATCAAATTATGAAAAGGGATGGTGACAAACATAA
*
53874446 ACAATGAAAAGAGAT-GGTGGCGACT
65 ACAATGAAAAGAGATAGCT-GCGACT
*
53874471 ATCAAATAATGAAAAGGGATAGCTTCGGCTATC
1 ATCAAATAATGAAAAGGGATAGCTTCGACTATC
53874504 GAGCTAGGAA
Statistics
Matches: 98, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
88 3 0.03
89 95 0.97
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (89 bp):
ATCAAATAATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACAAACATAAA
CAATGAAAAGAGATAGCTGCGACT
Found at i:53877928 original size:19 final size:19
Alignment explanation
Indices: 53877904--53877946 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
53877894 TATATACAAA
53877904 AATAACTGATTATAATTTG
1 AATAACTGATTATAATTTG
53877923 AATAACTGATTATAATTTG
1 AATAACTGATTATAATTTG
53877942 AATAA
1 AATAA
53877947 TATATTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (19 bp):
AATAACTGATTATAATTTG
Found at i:53879594 original size:3 final size:3
Alignment explanation
Indices: 53879586--53879611 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
53879576 TAATCACATC
53879586 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
53879612 CTCAATACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:53887902 original size:69 final size:69
Alignment explanation
Indices: 53887786--53888121 Score: 320
Period size: 69 Copynumber: 4.9 Consensus size: 69
53887776 CAACATTTAT
* * * *
53887786 GTCATATTAAGGCTCGCAGGTGAAGAGCTACAGCCTTCAACATAGTTAGCGAGAGCAAAGTTCCT
1 GTCATATTAAGGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAACAAAGTTCCT
53887851 AGTA
66 AGTA
* * *
53887855 GTCATATTAAGGCTCGCAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCT
1 GTCATATTAAGGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAACAAAGTTCCT
53887920 AG-A
66 AGTA
* ** * * * * *
53887923 TGTCATATTAAGCCTTACAGGAGAAAAGCCACAGCCTCTAACACAGTTAGCTAAAACAAA-TCTC
1 -GTCATATTAAGGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAACAAAGT-TC
53887987 CTAGCT-
64 CTAG-TA
* * * * *
53887993 GTCATATTAAGGCTTGCAGGTGAAGAGTCACAACCTCCAACATAGTTAGCGAGAACAAAGCTCCC
1 GTCATATTAAGGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAACAAAG-TTCC
* *
53888058 AACT-
65 TAGTA
* * * * * * * * * *
53888062 GTCACACTAGGGCTTGTAGGTGAAAATCTACAACCTCCAACATAGTTAGCGAGAACAAAG
1 GTCATATTAAGGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAACAAAG
53888122 CTCCCAACTG
Statistics
Matches: 224, Mismatches: 37, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
68 1 0.00
69 219 0.98
70 3 0.01
71 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (69 bp):
GTCATATTAAGGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAACAAAGTTCCT
AGTA
Found at i:53888087 original size:138 final size:138
Alignment explanation
Indices: 53887802--53888145 Score: 372
Period size: 138 Copynumber: 2.5 Consensus size: 138
53887792 TTAAGGCTCG
* *
53887802 CAGGTGAAGAGCTACAGCCT-TCAACATAGTTAGCGAGAGCAAAGT-TCCTAG-TAGTCATATTA
1 CAGGTGAAAAGCTACAGCCTCT-AACATAGTTAGCGAGAACAAA-TCTCCTAGCT-GTCATATTA
* * * * *
53887864 AGGCTCGCAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAGATGTCAT
63 AGGCTCGCAGGTGAAGAGCCACAACCTCCAACACAGTTAGCGAGAACAAAGCTCCCAGATGTCAC
*
53887929 ATTAAGCCTTA
128 ACTAAGCCTTA
* * * * *
53887940 CAGGAGAAAAGCCACAGCCTCTAACACAGTTAGCTAAAACAAATCTCCTAGCTGTCATATTAAGG
1 CAGGTGAAAAGCTACAGCCTCTAACATAGTTAGCGAGAACAAATCTCCTAGCTGTCATATTAAGG
* * *
53888005 CTTGCAGGTGAAGAGTCACAACCTCCAACATAGTTAGCGAGAACAAAGCTCCCA-ACTGTCACAC
66 CTCGCAGGTGAAGAGCCACAACCTCCAACACAGTTAGCGAGAACAAAGCTCCCAGA-TGTCACAC
* * *
53888069 TAGGGCTTG
130 TAAGCCTTA
* * * * * * * * *
53888078 TAGGTGAAAATCTACAACCTCCAACATAGTTAGCGAGAACAAAGCTCCCAACTGGCATATTAGGG
1 CAGGTGAAAAGCTACAGCCTCTAACATAGTTAGCGAGAACAAATCTCCTAGCTGTCATATTAAGG
53888143 CTC
66 CTC
53888146 TTAAGATAAA
Statistics
Matches: 168, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
137 2 0.01
138 164 0.98
139 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (138 bp):
CAGGTGAAAAGCTACAGCCTCTAACATAGTTAGCGAGAACAAATCTCCTAGCTGTCATATTAAGG
CTCGCAGGTGAAGAGCCACAACCTCCAACACAGTTAGCGAGAACAAAGCTCCCAGATGTCACACT
AAGCCTTA
Found at i:53888168 original size:69 final size:69
Alignment explanation
Indices: 53888022--53888171 Score: 205
Period size: 69 Copynumber: 2.2 Consensus size: 69
53888012 GTGAAGAGTC
* * *
53888022 ACAACCTCCAACATAGTTAGCGAGAACAAAGCTCCCAACTGTCACACTAGGGCTTGTAGGTGAAA
1 ACAACCTCCAACATAGTTAGCGAGAACAAAGCTCCCAACTGGCACACTAGGGCTTGTAGATAAAA
53888087 ATCT
66 ATCT
* *
53888091 ACAACCTCCAACATAGTTAGCGAGAACAAAGCTCCCAACTGGCATATTAGGGCTCT-TAAGATAA
1 ACAACCTCCAACATAGTTAGCGAGAACAAAGCTCCCAACTGGCACACTAGGGCT-TGT-AGATAA
53888155 AAAT-T
64 AAATCT
* *
53888160 GCAGCCTCCAAC
1 ACAACCTCCAAC
53888172 CTAATTTGCA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
69 63 0.88
70 9 0.12
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (69 bp):
ACAACCTCCAACATAGTTAGCGAGAACAAAGCTCCCAACTGGCACACTAGGGCTTGTAGATAAAA
ATCT
Found at i:53890172 original size:26 final size:26
Alignment explanation
Indices: 53890142--53890192 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
53890132 CGTTGGAAAG
*
53890142 AACACACGTCCTGGCTCTGTGAAAAA
1 AACACACGTCCTGGCTCTGAGAAAAA
*
53890168 AACACACGTCTTGGCTCTGAGAAAA
1 AACACACGTCCTGGCTCTGAGAAAA
53890193 CTACCTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (26 bp):
AACACACGTCCTGGCTCTGAGAAAAA
Found at i:53896492 original size:30 final size:31
Alignment explanation
Indices: 53896453--53896519 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
53896443 AAAATTGCTT
* *
53896453 TTTTTTTAATATTTTCTTGTTG-TTTTATTA
1 TTTTGTTAATATTTTCTTGTTGCTTTTACTA
53896483 TTTTGTTAATATTTTCTTGTTGCTTTTTACTA
1 TTTTGTTAATATTTTCTTGTTGC-TTTTACTA
53896515 TTTTG
1 TTTTG
53896520 CTACCATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 21 0.64
32 12 0.36
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.70
Consensus pattern (31 bp):
TTTTGTTAATATTTTCTTGTTGCTTTTACTA
Found at i:53896759 original size:20 final size:20
Alignment explanation
Indices: 53896718--53896759 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
53896708 ATGTTTTTAG
* *
53896718 TATTTTTAATGTATTATGTA
1 TATTTTTAATATATTATATA
53896738 TATTTTTAA-ATATGTATATA
1 TATTTTTAATATAT-TATATA
53896758 TA
1 TA
53896760 AAAATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
TATTTTTAATATATTATATA
Found at i:53900286 original size:30 final size:30
Alignment explanation
Indices: 53900250--53900310 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
53900240 AAGACCAGGC
53900250 CTACATTCTATCAACAACTCTCAGTCTGTA
1 CTACATTCTATCAACAACTCTCAGTCTGTA
*
53900280 CTACATTCTATCAACAACTCTTAGTCTGTA
1 CTACATTCTATCAACAACTCTCAGTCTGTA
53900310 C
1 C
53900311 ATTCTCTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.34
Consensus pattern (30 bp):
CTACATTCTATCAACAACTCTCAGTCTGTA
Found at i:53901907 original size:2 final size:2
Alignment explanation
Indices: 53901900--53901927 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
53901890 TTAAATCTAA
53901900 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
53901928 GTAAATTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:53910270 original size:27 final size:27
Alignment explanation
Indices: 53910152--53910274 Score: 83
Period size: 27 Copynumber: 4.6 Consensus size: 27
53910142 AATAATAAGT
*
53910152 AATATTTAAATAATTTATATAAATATAA
1 AATATTTTAATAATTTATATAAATA-AA
* * * * **
53910180 ATTAATCTAAT-TTTTATATAAATTTTA
1 AATATTTTAATAATTTATATAAA-TAAA
* * *
53910207 AATA-TTTAAT-ATTTAAATTAATCTAA
1 AATATTTTAATAATTTATATAAAT-AAA
* *
53910233 AGT-TTTAAATAATTTATATAAATAAA
1 AATATTTTAATAATTTATATAAATAAA
53910259 AATATTTTAATAATTT
1 AATATTTTAATAATTT
53910275 GAGCTTCTAA
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
25 1 0.01
26 26 0.37
27 35 0.50
28 8 0.11
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (27 bp):
AATATTTTAATAATTTATATAAATAAA
Found at i:53910884 original size:25 final size:24
Alignment explanation
Indices: 53910848--53910903 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
53910838 CTTACTGTAG
* **
53910848 AAAATATTAAATTGATT-TTTTATT
1 AAAAAATTAAATAAATTATTTT-TT
53910872 AAAAAATTAAAATAAATTATTTTTT
1 AAAAAATT-AAATAAATTATTTTTT
53910897 AAAAAAT
1 AAAAAAT
53910904 GAGATATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.26
25 16 0.59
26 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
AAAAAATTAAATAAATTATTTTTT
Found at i:53911184 original size:17 final size:18
Alignment explanation
Indices: 53911162--53911200 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
53911152 ATAACTTATT
*
53911162 ATTAATATAATTTA-AAA
1 ATTAATACAATTTATAAA
53911179 ATTAATACAATTTATAAA
1 ATTAATACAATTTATAAA
53911197 ATTA
1 ATTA
53911201 TCTAGTGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTAATACAATTTATAAA
Found at i:53917563 original size:43 final size:42
Alignment explanation
Indices: 53917491--53917647 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
53917481 TACCAATGTC
* * *
53917491 ATATCCCATATATGGTCTTACATGTAATCTCATATCGATGCTA
1 ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC-A
* * * *
53917534 ATAACCCAGCTATGGTCTTACACGAAATCTTATATCGATGCC
1 ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCA
* * * *
53917576 ATATCCTAGATATGGTCTTATA-AAAAGTCTCATATCGATACA
1 ATATCCCAGATATGGTCTTACACGAAA-TCTCATATCGATGCA
*
53917618 ATATCCCAGATATGGTCTTACACGTAATCT
1 ATATCCCAGATATGGTCTTACACGAAATCT
53917648 AAGTAACCCT
Statistics
Matches: 93, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
41 3 0.03
42 53 0.57
43 37 0.40
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (42 bp):
ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCA
Found at i:53923402 original size:43 final size:42
Alignment explanation
Indices: 53923340--53923503 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
53923330 TACTATACCA
* * *
53923340 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
53923382 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
53923425 ATGCCATATCCCAAATATGGTCTTATAC-AAAGTTTCATACCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAA-TCTCATATCG
* * *
53923467 AAGCCATATCCTAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
53923504 GTAACCCTAA
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
41 3 0.03
42 60 0.59
43 39 0.38
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:53928421 original size:17 final size:15
Alignment explanation
Indices: 53928399--53928450 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
53928389 TCTTCATAAA
53928399 CATATATCATTCATTT
1 CATATATCA-TCATTT
53928415 CATTATATCAAT-ATTT
1 CA-TATATC-ATCATTT
*
53928431 CATATACCATCATTTT
1 CATATATCATCA-TTT
53928447 CATA
1 CATA
53928451 AATTTCATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 2 0.06
15 6 0.19
16 15 0.48
17 7 0.23
18 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (15 bp):
CATATATCATCATTT
Found at i:53931381 original size:79 final size:80
Alignment explanation
Indices: 53931268--53931529 Score: 381
Period size: 79 Copynumber: 3.3 Consensus size: 80
53931258 TACTCGTTCA
* * **
53931268 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
*
53931331 ATTTAGTGACTCGCACC
64 ATTTAGTGACTAGCACC
53931348 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
53931412 TTAGTGACTAGCACC
66 TTAGTGACTAGCACC
*
53931427 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTGGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
* *
53931491 ATAGTCACTTAGCA-C
66 TTAGTGAC-TAGCACC
*
53931506 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
53931530 CATCATTCGA
Statistics
Matches: 169, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
78 3 0.02
79 137 0.81
80 29 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
TTAGTGACTAGCACC
Found at i:53931489 original size:119 final size:121
Alignment explanation
Indices: 53931266--53931529 Score: 326
Period size: 119 Copynumber: 2.2 Consensus size: 121
53931256 GCTACTCGTT
* *
53931266 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCG
* * * *
53931330 GATTTAGTGACTCGCACCAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAAC-TCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTTAGCA
* * * *
53931385 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTGACTAGCACCAATGCCTTCGGG-CTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAACTAGCACAAATGCCTTCGGGACTTAACCC
* * * *
53931447 GGAATTAGTAACTCGCACAAATGCCTTCGGATCTTGGTCCGGATATAGTCACTTAGCA
65 GGAATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGATATAGTAACTTAGCA
53931505 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53931530 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
118 37 0.30
119 73 0.59
120 14 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTTAGCA
Found at i:53931529 original size:40 final size:40
Alignment explanation
Indices: 53931247--53931529 Score: 303
Period size: 40 Copynumber: 7.1 Consensus size: 40
53931237 TGGAATTTAA
** *
53931247 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53931287 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
53931327 CCGGATTTAGTGACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
53931366 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
53931406 CCGGATTTAGTGACTAGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53931445 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTGGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
53931485 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
53931525 CCGGA
1 CCGGA
53931530 CATCATTCGA
Statistics
Matches: 202, Mismatches: 29, Indels: 24
0.79 0.11 0.09
Matches are distributed among these distances:
38 4 0.02
39 62 0.31
40 122 0.60
41 14 0.07
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:53933786 original size:16 final size:16
Alignment explanation
Indices: 53933765--53933818 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
53933755 TTTGGTTTAT
*
53933765 TGTAATGGAATAGGGC
1 TGTAATGGAATAGAGC
* *
53933781 TGTAATTGAATAGAGA
1 TGTAATGGAATAGAGC
53933797 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGC
53933813 TGTAAT
1 TGTAAT
53933819 TAGTAATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.04, G:0.30, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGC
Found at i:53933885 original size:44 final size:46
Alignment explanation
Indices: 53933800--53933892 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
53933790 ATAGAGATGT
* *
53933800 AATGGAATAGAGCTGTAATTAGTAATTCAATTGTTTGGTTGAATGG
1 AATGAAATAGAGCTGTAATTAGTAATTCAATTGTTTAGTTGAATGG
*
53933846 AATGAAATAGAGCTGTAA-TAG-AATTC-TTGTGTTTAGTTGAATGG
1 AATGAAATAGAGCTGTAATTAGTAATTCAAT-TGTTTAGTTGAATGG
53933890 AAT
1 AAT
53933893 AGATGTTGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.51
45 3 0.07
46 17 0.40
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (46 bp):
AATGAAATAGAGCTGTAATTAGTAATTCAATTGTTTAGTTGAATGG
Found at i:53951622 original size:40 final size:40
Alignment explanation
Indices: 53951539--53951757 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
53951529 ACCCAAGTAT
** * *
53951539 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
53951577 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
53951617 CTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
53951657 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
53951697 CTTCAGATCTTAG-TCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
53951736 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
53951758 CATTCGAATA
Statistics
Matches: 150, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 46 0.31
40 92 0.61
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:53951670 original size:80 final size:79
Alignment explanation
Indices: 53951548--53951757 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 79
53951538 TCTTCGGGAT
* ** * * * *
53951548 TTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC-ACTAGCAT
1 TTAGCCAGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCAC
*
53951611 AAATGCCTTCGGGA-C
65 AAATGCCTTC-AGATC
* * *
53951626 TTAGCCCAGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
1 TTAG-CCAGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCAC
53951691 AAATGCCTTCAGATC
65 AAATGCCTTCAGATC
* * * *
53951706 TTAGTCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCAGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
53951758 CATTCGAATA
Statistics
Matches: 112, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 4 0.04
79 60 0.54
80 48 0.43
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
TTAGCCAGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACA
AATGCCTTCAGATC
Found at i:53957406 original size:46 final size:46
Alignment explanation
Indices: 53957308--53957529 Score: 209
Period size: 46 Copynumber: 4.7 Consensus size: 46
53957298 TGGGTAAAGT
* * *
53957308 GCCGATGCCATGTCCCAAACATGGTCTTACACT-GCCTATCATCTC-ATA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCATCTCGA-G
*
53957356 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGAG
* * * * *
53957402 GCCGATGTATATCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAG
* * * * *
53957448 GTCGATGCAATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGAG
*
53957496 GTCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
53957530 CAACAATAAC
Statistics
Matches: 148, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
45 1 0.01
46 75 0.51
47 39 0.26
48 32 0.22
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAG
Found at i:53957513 original size:94 final size:92
Alignment explanation
Indices: 53957308--53957529 Score: 236
Period size: 94 Copynumber: 2.4 Consensus size: 92
53957298 TGGGTAAAGT
*
53957308 GCCGATGCCATGTCCCAAACATGGTCTTACACT-GCCTATCATCTCATAGCCGATGCATGTCCCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTATCATCTCATAGCCGATGCATGTCCCA
* *
53957372 GACATGTCTTACACTAGCTTACGTCTCGAG
63 GACATGTCTTACACTAGCTTACATATCGAG
* * * * * *
53957402 GCCGATGTATATCCCAGACATGTCTTACACTAGCTCTCGTCTCA-ATGTCGATGCAATGTCCTAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATCTCATA-GCCGATGC-ATGTCCCAG
* *
53957466 ACATGGTCTTACACTGGCTCT-CATAAT-GTG
64 ACAT-GTCTTACACTAGCT-TACAT-ATCGAG
*
53957496 GTCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
53957530 CAACAATAAC
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
91 1 0.01
92 26 0.24
93 24 0.22
94 55 0.51
95 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATCTCATAGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTTACATATCGAG
Found at i:53960418 original size:57 final size:56
Alignment explanation
Indices: 53960351--53960469 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 56
53960341 AAGGGATGAT
53960351 GGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAAATAAAATAAGAAGCAC
1 GGGCAAAACATGTCATGAAACATGTTGTGTTAATGG-AAAAATAAAATAAGAAGCAC
* *
53960408 GGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCAT
1 GGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCAC
53960464 GGGCAA
1 GGGCAA
53960470 TAAACTAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 24 0.40
57 36 0.60
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.21
Consensus pattern (56 bp):
GGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCAC
Found at i:53961835 original size:40 final size:40
Alignment explanation
Indices: 53961599--53961821 Score: 278
Period size: 39 Copynumber: 5.7 Consensus size: 40
53961589 TCGAATGATG
* * * *
53961599 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
53961639 T-CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53961678 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53961717 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53961756 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53961797 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53961822 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 94 0.58
40 65 0.40
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53961844 original size:79 final size:78
Alignment explanation
Indices: 53961599--53961821 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
53961589 TCGAATGATG
* * * * * * *
53961599 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT-CGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCGAAGGCATT
53961662 TGTGCGAGATACTAA
64 TGTGCGAGATACTAA
* *
53961677 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTT
1 -TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTT
*
53961741 GTGCGAGTTACTAAA
65 GTGCGAGATACT-AA
* *
53961756 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGT-CCGAAGGCATT
53961820 TG
64 TG
53961822 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
78 51 0.40
79 60 0.48
80 15 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTTG
TGCGAGATACTAA
Found at i:53961852 original size:79 final size:79
Alignment explanation
Indices: 53961644--53961854 Score: 232
Period size: 79 Copynumber: 2.7 Consensus size: 79
53961634 CCATATCGGA
** * * * *
53961644 CTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTGGTGCGA
1 CTAAG-TCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGGTGCGA
53961708 GTTACTAAATCCGGG
65 GTTACTAAATCCGGG
* ** * *
53961723 TTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 CTAAGTCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGGTGCGAG
53961788 TTACTATAA-CCGGG
66 TTACTA-AATCCGGG
* * *
53961802 CTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CTAAGT-CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
53961855 TACGTGATTT
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 33 0.29
79 55 0.48
80 26 0.23
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CTAAGTCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGGTGCGAG
TTACTAAATCCGGG
Found at i:53968884 original size:38 final size:38
Alignment explanation
Indices: 53968788--53968962 Score: 158
Period size: 38 Copynumber: 4.4 Consensus size: 38
53968778 GCTGTCCGGC
* * **
53968788 TAAGTCCCGAAGGCTTTGTGCTAAGTGACT-ATATCCGGAC
1 TAAGT-CCGAAGGCTTTGTGC-GAGTTACTAAT-TCCGGGT
* *
53968828 TAAGATCCGAAGGATTTGTGCGAGTTATTAATTCCGGGT
1 TAAG-TCCGAAGGCTTTGTGCGAGTTACTAATTCCGGGT
*
53968867 TAAGTCCGAAGGCTTTGTGCGAGATACTAATTCCGGGT
1 TAAGTCCGAAGGCTTTGTGCGAGTTACTAATTCCGGGT
* * *
53968905 TAAGTCCCGAAGGCATTCGTGGCGAGTT-TTAAAATCCGGGT
1 TAAGT-CCGAAGGC-TTTGT-GCGAGTTACT-AATTCCGGGT
53968946 TAAGTCCG-AGGCATTTG
1 TAAGTCCGAAGGC-TTTG
53968963 AATGAGTTAT
Statistics
Matches: 115, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
38 36 0.31
39 30 0.26
40 28 0.24
41 21 0.18
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (38 bp):
TAAGTCCGAAGGCTTTGTGCGAGTTACTAATTCCGGGT
Found at i:53968943 original size:41 final size:38
Alignment explanation
Indices: 53968828--53968962 Score: 159
Period size: 38 Copynumber: 3.5 Consensus size: 38
53968818 ATATCCGGAC
53968828 TAAGATCCGAAGG-ATTTGTGCGAGTTATTAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGTT-TTAATTCCGGGT
**
53968867 TAAGTCCGAAGGC-TTTGTGCGAGATACTAATTCCGGGT
1 TAAGTCCGAAGGCATTTGTGCGAG-TTTTAATTCCGGGT
* *
53968905 TAAGTCCCGAAGGCATTCGTGGCGAGTTTTAAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGT-GCGAGTTTT-AATTCCGGGT
53968946 TAAGTCCG-AGGCATTTG
1 TAAGTCCGAAGGCATTTG
53968963 AATGAGTTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
38 34 0.41
39 21 0.25
40 9 0.11
41 19 0.23
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (38 bp):
TAAGTCCGAAGGCATTTGTGCGAGTTTTAATTCCGGGT
Found at i:53970331 original size:27 final size:27
Alignment explanation
Indices: 53970293--53970534 Score: 340
Period size: 27 Copynumber: 9.0 Consensus size: 27
53970283 GGGTGTTACA
*
53970293 AAAATGGTAATTCTGTAAATCGAGGGT
1 AAAATGGTAATTCTATAAATCGAGGGT
*
53970320 AAAATGGTAATTCTATAAATCAAGGGT
1 AAAATGGTAATTCTATAAATCGAGGGT
*
53970347 AAAATGGTAATTTTATAAATCGAGGGT
1 AAAATGGTAATTCTATAAATCGAGGGT
* *
53970374 AAAACGGTAATTCTGTAAATCGAGGGT
1 AAAATGGTAATTCTATAAATCGAGGGT
** * *
53970401 AAAACAGTAATTCTGTAAATTGAGGGT
1 AAAATGGTAATTCTATAAATCGAGGGT
* * *
53970428 AAAATGGTAATTCTGTAAATCAAGGAT
1 AAAATGGTAATTCTATAAATCGAGGGT
* *
53970455 AAAACGGTAATTTTATAAATCGAGGGT
1 AAAATGGTAATTCTATAAATCGAGGGT
53970482 AAAATGGTAATTCTATAAATCGAGGGT
1 AAAATGGTAATTCTATAAATCGAGGGT
* *
53970509 AAAATGATAATTCTACAAATCGAGGG
1 AAAATGGTAATTCTATAAATCGAGGG
53970535 CATTTCAGTA
Statistics
Matches: 192, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 192 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AAAATGGTAATTCTATAAATCGAGGGT
Found at i:53972797 original size:31 final size:31
Alignment explanation
Indices: 53972747--53972820 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
53972737 ACGGTTACTG
*
53972747 GGCCGAAGCC-TATCATAAATCAAATCACTA
1 GGCCGAAGCCTTTTCATAAATCAAATCACTA
*
53972777 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCAAATCACTA
53972808 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
53972821 ATTGTAAACG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 10 0.24
31 31 0.76
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCAAATCACTA
Found at i:53972904 original size:42 final size:42
Alignment explanation
Indices: 53972844--53972935 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
53972834 TGGCCCATTG
*
53972844 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
* *
53972886 GCCCATTTCAATATCACATGAAATACCAATGAATGTATTCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
53972928 GCCCATTT
1 GCCCATTT
53972936 GGGGATACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:53973197 original size:20 final size:20
Alignment explanation
Indices: 53973172--53973226 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
53973162 TTATGAATTC
*
53973172 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
53973191 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
53973212 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
53973227 CCCCACGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 8 0.24
20 23 0.70
21 2 0.06
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:53973282 original size:25 final size:25
Alignment explanation
Indices: 53973254--53973301 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53973244 ATAATTAAAC
*
53973254 CCTAGGGGCAAAACAGTCATTTTTA
1 CCTAAGGGCAAAACAGTCATTTTTA
**
53973279 CCTAAGGGCAAAGTAGTCATTTT
1 CCTAAGGGCAAAACAGTCATTTT
53973302 CACATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (25 bp):
CCTAAGGGCAAAACAGTCATTTTTA
Found at i:53973934 original size:27 final size:27
Alignment explanation
Indices: 53973904--53973968 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
53973894 GGGCATATTC
53973904 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
53973931 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
53973958 GTCTTTTTACC
1 GTCATTTTACC
53973969 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:53974090 original size:29 final size:28
Alignment explanation
Indices: 53974026--53974103 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
53974016 ATCTACAAAC
*
53974026 CAAGGGTATTTC-AGTAATTTTGTAAAGT
1 CAAGGGTATTTCTA-TAATTTTGGAAAGT
*
53974054 -AATGGTATTTCTATAATATTTGGAAAGT
1 CAAGGGTATTTCTATAAT-TTTGGAAAGT
*
53974082 CAAGGGTATTTCTGTAATTTTG
1 CAAGGGTATTTCTATAATTTTG
53974104 TAAATTAGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
27 14 0.33
28 14 0.33
29 15 0.35
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (28 bp):
CAAGGGTATTTCTATAATTTTGGAAAGT
Found at i:53974103 original size:28 final size:28
Alignment explanation
Indices: 53974026--53974129 Score: 115
Period size: 27 Copynumber: 3.8 Consensus size: 28
53974016 ATCTACAAAC
*
53974026 CAAGGGTATTTCAGTAATTTTGTAAAGT
1 CAAGGGTATTTCTGTAATTTTGTAAAGT
* * *
53974054 -AATGGTATTTCTATAATATTTGGAAAGT
1 CAAGGGTATTTCTGTAAT-TTTGTAAAGT
53974082 CAAGGGTATTTCTGTAATTTTGTAAA-T
1 CAAGGGTATTTCTGTAATTTTGTAAAGT
* *
53974109 TAGGGGTATTT-TGGTAATTTT
1 CAAGGGTATTTCT-GTAATTTT
53974130 ACAAATTGAG
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.02
27 32 0.50
28 16 0.25
29 15 0.23
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (28 bp):
CAAGGGTATTTCTGTAATTTTGTAAAGT
Found at i:53974202 original size:81 final size:79
Alignment explanation
Indices: 53974109--53974290 Score: 240
Period size: 81 Copynumber: 2.3 Consensus size: 79
53974099 TTTTGTAAAT
* * *
53974109 TAGGGGTATTTTGGTAATTTTACAAATTGAGGG-TATTACGGTAATTTCACAAACCAGTGGTATT
1 TAGGGGTATTTTGGTAATTTTACAAACT-AGGGATATTACAGCAATTTCACAAACCAG-GGTATT
53974173 TTGGTAACTTTACAAA
64 TTGGTAACTTTACAAA
** *
53974189 CTAGGGGTATTTTGGTAATTTTACAAACTAGGGATATTTTAGCAATTTTACAAACCAGGGTATTT
1 -TAGGGGTATTTTGGTAATTTTACAAACTAGGGATATTACAGCAATTTCACAAACCAGGGTATTT
* *
53974254 TGGTAATTTTACTAA
65 TGGTAACTTTACAAA
*
53974269 TCGAGGGTATTTTGGTAATTTT
1 TAG-GGGTATTTTGGTAATTTT
53974291 GTAAACCAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
79 2 0.02
80 42 0.47
81 46 0.51
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (79 bp):
TAGGGGTATTTTGGTAATTTTACAAACTAGGGATATTACAGCAATTTCACAAACCAGGGTATTTT
GGTAACTTTACAAA
Found at i:53974325 original size:54 final size:54
Alignment explanation
Indices: 53974254--53974599 Score: 300
Period size: 54 Copynumber: 6.4 Consensus size: 54
53974244 CAGGGTATTT
* ** * ***
53974254 TGGTAATTTTACT-AATCGAGGGTATTTTGGTAATTTTGTAAACCAAAGGTATTT
1 TGGTAATTTT-GTAAATCGAGGGTATAATGGTAATTTTGTAAACCAAGGGTAAAA
* * * * *
53974308 TAGTAATTTTGTAAATCGAGGGTACAATGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTTTGTAAATCGAGGGTATAATGGTAATTTTGTAAACCAAGGGTAAAA
* * * *
53974362 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAA
1 TGGTAATTTTGTAAATCGAGGGTATAATGGTAATTTTGTAAACCAAGGGTAAAA
* * * * *
53974416 TGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTT-TAAATCAAGGGTAAAA
1 TGGTAATTTTGTAAATCGAGGGTATAATGGTAATT-TTGTAAACCAAGGGTAAAA
** * * * * * *
53974470 CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGATAAAA
1 TGGTAATTTTGTAAATCGAGGGTATAATGGTAATTTTGTAAACCAAGGGTAAAA
* * * * * * * *
53974524 TGATAATTCTATAAATCGAGGGTAAAATGGTAATTGTATAAATCGAGGGTAAAA
1 TGGTAATTTTGTAAATCGAGGGTATAATGGTAATTTTGTAAACCAAGGGTAAAA
* **
53974578 TGGTAATTCTACAAATCGAGGG
1 TGGTAATTTTGTAAATCGAGGG
53974600 CATTTCAGTA
Statistics
Matches: 252, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
53 2 0.01
54 249 0.99
55 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (54 bp):
TGGTAATTTTGTAAATCGAGGGTATAATGGTAATTTTGTAAACCAAGGGTAAAA
Found at i:53974331 original size:27 final size:27
Alignment explanation
Indices: 53974084--53974619 Score: 215
Period size: 27 Copynumber: 19.9 Consensus size: 27
53974074 TGGAAAGTCA
*
53974084 AGGGTATTTCT-GTAATTTTGTAAAT-T
1 AGGGTATTT-TGGTAATTTTGTAAATCG
** *
53974110 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTGTAAATCG
** *** *
53974138 AGGGTATTACGGTAATTTCACAAA-CC
1 AGGGTATTTTGGTAATTTTGTAAATCG
* ** *
53974164 AGTGGTATTTTGGTAACTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTGTAAATCG
** *
53974191 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTTGGTAATTTTGTAAATCG
* * ** *
53974218 AGGGATATTTTAGCAATTTTACAAA-CC
1 AGGG-TATTTTGGTAATTTTGTAAATCG
*
53974245 AGGGTATTTTGGTAATTTTACT-AATCG
1 AGGGTATTTTGGTAATTTT-GTAAATCG
* *
53974272 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTGTAAATCG
* *
53974299 AAGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** *
53974326 AGGGTACAATGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** *
53974353 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * *
53974380 AGGGTAAAATGGTAATTCTGTAAATCA
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * *
53974407 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
**** *
53974434 AGGGTAAAACGGTAATTCTT-TAAATCA
1 AGGGTATTTTGGTAATT-TTGTAAATCG
*****
53974461 AGGGTAAAACAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
**** *
53974488 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
* *** * * *
53974515 AGGATAAAATGATAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * *
53974542 AGGGTAAAATGGTAATTGTATAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * **
53974569 AGGGTAAAATGGTAATTCTACAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
* ** *
53974596 AGGGCATTTCAGTAATTTGGTAAA
1 AGGGTATTTTGGTAATTTTGTAAA
53974620 CTAAAGTATT
Statistics
Matches: 434, Mismatches: 65, Indels: 21
0.83 0.12 0.04
Matches are distributed among these distances:
26 25 0.06
27 406 0.94
28 3 0.01
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTGTAAATCG
Found at i:53974368 original size:81 final size:81
Alignment explanation
Indices: 53974254--53974599 Score: 415
Period size: 81 Copynumber: 4.3 Consensus size: 81
53974244 CAGGGTATTT
* *** * * * ***
53974254 TGGTAATTTTACT-AATCGAGGGTATTTTGGTAATTTTGTAAACCAAAGGTATTTTAGTAATTTT
1 TGGTAATTCTA-TAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATAGTAATTTT
*
53974318 GTAAATCGAGGGTACAA
65 GTAAATCGAGGGTAAAA
* * * *
53974335 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTG
1 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATAGTAATTTTG
*
53974400 TAAATCAAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * *
53974416 TGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTTTAAATCAAGGGTAAAACAGTAATTTTG
1 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATAGTAATTTTG
53974481 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * * * * * *
53974497 CGGTAATTCTGTAAATCGAGGATAAAATGATAATTCTATAAATCGAGGGTAAAATGGTAATTGTA
1 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATAGTAATTTTG
53974562 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
*
53974578 TGGTAATTCTACAAATCGAGGG
1 TGGTAATTCTATAAATCGAGGG
53974600 CATTTCAGTA
Statistics
Matches: 225, Mismatches: 39, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
80 1 0.00
81 224 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (81 bp):
TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATAGTAATTTTG
TAAATCGAGGGTAAAA
Found at i:53974612 original size:54 final size:54
Alignment explanation
Indices: 53974310--53974599 Score: 356
Period size: 54 Copynumber: 5.4 Consensus size: 54
53974300 AGGTATTTTA
* * *
53974310 GTAATTTTGTAAATCGAGGGTACAAT-GGTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGG-AAAATCGGTAATTCTGTAAATCGAGGGTAAAATG
* *
53974364 GTAATTCTGTAAATCGAGGGTAAAAT-GGTAATTCTGTAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGG-AAAATCGGTAATTCTGTAAATCGAGGGTAAAATG
* * **
53974418 GTAATTCTATAAATCGAGGGTAAAA-CGGTAATTCTTTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGG-AAAATCGGTAATTCTGTAAATCGAGGGTAAAATG
* * *
53974472 GTAATTTTGTAAATCGAGGGTAAAA-CGGTAATTCTGTAAATCGAGGATAAAATG
1 GTAATTCTATAAATCGAGGG-AAAATCGGTAATTCTGTAAATCGAGGGTAAAATG
* * *
53974526 ATAATTCTATAAATCGAGGGTAAAAT-GGTAATTGTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGG-AAAATCGGTAATTCTGTAAATCGAGGGTAAAATG
*
53974580 GTAATTCTACAAATCGAGGG
1 GTAATTCTATAAATCGAGGG
53974600 CATTTCAGTA
Statistics
Matches: 212, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
54 212 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGAAAATCGGTAATTCTGTAAATCGAGGGTAAAATG
Found at i:53976881 original size:31 final size:31
Alignment explanation
Indices: 53976829--53976906 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
53976819 TTTAACGGTT
53976829 ACTGGGCCGAAGCC-TTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
53976859 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
53976890 ACTGGGCTGAAG-CTTTT
1 ACTGGGCCGAAGCCTTTT
53976907 ATGTAAACGG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 19 0.42
31 26 0.58
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:53977005 original size:42 final size:40
Alignment explanation
Indices: 53976929--53977018 Score: 144
Period size: 42 Copynumber: 2.2 Consensus size: 40
53976919 TGGCCCATAG
*
53976929 GCCCATTTCAAAACACATGAATATCAATGAATGTATGCAA
1 GCCCATTTCAAAACACATGAATACCAATGAATGTATGCAA
*
53976969 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAA-AACACATG-AATACCAATGAATGTATGCAA
53977011 GCCCATTT
1 GCCCATTT
53977019 GGGGATACTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 11 0.24
41 7 0.15
42 28 0.61
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (40 bp):
GCCCATTTCAAAACACATGAATACCAATGAATGTATGCAA
Found at i:53977191 original size:25 final size:26
Alignment explanation
Indices: 53977163--53977259 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
53977153 CCTCTTTAAT
*
53977163 AACTTGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
53977188 AACTGGGGCA-AAGCCCTTTCCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
53977213 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
53977239 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
53977260 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 31 0.48
26 33 0.52
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:53977334 original size:20 final size:20
Alignment explanation
Indices: 53977309--53977384 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
53977299 TTATGAATTC
*
53977309 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
53977329 ATCATGTGCATATCATGCAT
1 ATCATGTGCATATCATACAT
53977349 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
53977369 ATCATGT--ATATCATAC
1 ATCATGTGCATATCATAC
53977385 CCCACGTATC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
20 41 0.79
21 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:53977340 original size:11 final size:11
Alignment explanation
Indices: 53977309--53977364 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
53977299 TTATGAATTC
53977309 ATCATGTGCAT
1 ATCATGTGCAT
* *
53977320 TTCA--TACAT
1 ATCATGTGCAT
53977329 ATCATGTGCAT
1 ATCATGTGCAT
53977340 ATCA--TGCAT
1 ATCATGTGCAT
53977349 ATCATGTGCAT
1 ATCATGTGCAT
53977360 ATCAT
1 ATCAT
53977365 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:53978066 original size:27 final size:27
Alignment explanation
Indices: 53978036--53978100 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
53978026 GGGCATATTT
*
53978036 GTCATTTTACCATACAAGGGTATTATG
1 GTCATTTTACCATACAAGGGTATTACG
* * * *
53978063 GTCACTTTACCCTACAGGGGTTTTACG
1 GTCATTTTACCATACAAGGGTATTACG
*
53978090 GTCTTTTTACC
1 GTCATTTTACC
53978101 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:53978235 original size:28 final size:27
Alignment explanation
Indices: 53978165--53978235 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
53978155 AACCAAGGGT
* *
53978165 ATTTCAGTAATTTTATAAAGTAATGGT
1 ATTTCTGTAATTTTATAAAGTAATGGC
*
53978192 ATTTCTATAATATTTATAAAGTCAATGGC
1 ATTTCTGTAAT-TTTATAAAGT-AATGGC
53978221 ATTT-TGGTAATTTTA
1 ATTTCT-GTAATTTTA
53978236 CAAATTGAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 9 0.24
28 15 0.41
29 13 0.35
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (27 bp):
ATTTCTGTAATTTTATAAAGTAATGGC
Found at i:53978447 original size:80 final size:81
Alignment explanation
Indices: 53978272--53978476 Score: 270
Period size: 80 Copynumber: 2.5 Consensus size: 81
53978262 ACATACCAAT
* * * * *
53978272 GGTATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGATATTTTGGT
*
53978337 AACTTTACAAACTAGG
66 AACTTTACAAACGAGG
*
53978353 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAAACCA-GGATATTTTGGT
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGATATTTTGGT
* * *
53978417 AATTTTACTGATCGA-G
66 AACTTTAC-AAACGAGG
** *
53978433 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTT
53978477 GTAAATCTAG
Statistics
Matches: 109, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
80 59 0.54
81 50 0.46
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGATATTTTGGT
AACTTTACAAACGAGG
Found at i:53978481 original size:27 final size:27
Alignment explanation
Indices: 53978131--53978476 Score: 282
Period size: 27 Copynumber: 12.8 Consensus size: 27
53978121 TTTCATTCTA
** * *
53978131 CAAGGGTGCTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
53978158 CAAGGGTATTTCAGTAATTTTATAAAG
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * * *
53978185 TAATGGTATTTCT-ATAATATTTATAAAGT
1 CAAGGGTATTT-TGGTAAT-TTTACAAA-C
* * *
53978214 CAATGGCATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * * *
53978241 TGAGGGTATTTCGGTAATTTCACATAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
53978268 CAATGGTATTTTGGTAACTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
53978295 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
53978322 TAGGGGTATTTTGGTAACTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
53978349 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
53978376 CAGGGGTATTTTAGCAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** *
53978403 C-AGGATATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
53978429 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53978456 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
53978477 GTAAATCTAG
Statistics
Matches: 258, Mismatches: 56, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
26 19 0.07
27 210 0.81
28 16 0.06
29 13 0.05
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:53978490 original size:54 final size:54
Alignment explanation
Indices: 53978221--53978544 Score: 226
Period size: 54 Copynumber: 6.0 Consensus size: 54
53978211 AGTCAATGGC
*** * * * * * * *
53978221 ATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACATACCAATGGT
1 ATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGAGGGT
* * * * *
53978275 ATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGT
1 ATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGA-GGGT
* * * * *
53978329 ATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-CCAGGGGT
1 ATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGA-GGGT
* * * *
53978383 ATTTTAGCAATTTTACAAACC-AGGATATTTTGGTAATTTTACT-GATCGAGGGT
1 ATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTA-TAAATCGAGGGT
** * * *
53978436 ATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCTAGGGT
1 ATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGAGGGT
*** * * *** * *
53978490 ACAATGGTAATTCTGA-AAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGT
1 ATTTTGGTAATT-TTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGAGGGT
53978544 A
1 A
53978545 AAACAGTAAT
Statistics
Matches: 224, Mismatches: 40, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
53 43 0.19
54 180 0.80
55 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
ATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGAGGGT
Found at i:53978499 original size:27 final size:27
Alignment explanation
Indices: 53978469--53978650 Score: 231
Period size: 27 Copynumber: 6.7 Consensus size: 27
53978459 GGGTATTTTA
* * *
53978469 GTAATTTTGTAAATCTAGGGTACAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
53978496 GTAATTCTGAAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
**
53978523 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
53978550 GTAATTCTATAAATCGAGGGTAAAACT-
1 GTAATTCTGTAAATCGAGGGTAAAA-TG
* * *
53978577 GTAATTCTTTAAATCGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
53978604 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
53978631 GTAATTCTATAAATCGAGGG
1 GTAATTCTGTAAATCGAGGG
53978651 CATTTCAGTA
Statistics
Matches: 137, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
27 137 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:53980076 original size:30 final size:30
Alignment explanation
Indices: 53980042--53980101 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
53980032 CCCTAATATG
53980042 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
53980072 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
53980102 GGTTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:53985316 original size:26 final size:25
Alignment explanation
Indices: 53985274--53985327 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
53985264 TAAAACCTAG
53985274 AAATAAAATAATATTAAAGGAAAATA
1 AAATAAAATAATATTAAA-GAAAATA
* *
53985300 AAATAAAAT-GTACTTAAAGAAGATA
1 AAATAAAATAATA-TTAAAGAAAATA
53985325 AAA
1 AAA
53985328 AAGATAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (25 bp):
AAATAAAATAATATTAAAGAAAATA
Found at i:53993813 original size:353 final size:352
Alignment explanation
Indices: 53992675--53994089 Score: 1494
Period size: 354 Copynumber: 4.0 Consensus size: 352
53992665 AGAGACATAT
* * * * * * *
53992675 ATGTGACTGACTGGATTGATAGTAGATCAGATTGGACCCAAGAAGAAGAGATCCTAAATCCGTTT
1 ATGTGACTGACTGGACTGACAGTACATTAGACTAGACCTAAGAAGAAGAGATCCTAAATCCGTTT
* * * * * *
53992740 ATGGATTTATTCACTTGTGACATTCTATGTTTGGCGTACCTTAATCCTAAGTGGATGGCTGACTA
66 ATGGATTTATTCACTTGTGACATTCAAAGTGTGGCATACCTTAATCCTAAGTGGAT-GATGGCTA
** * * * * *** * *
53992805 TGTATGTGTGACTCATATACACTAACGTAAGTAAAATAATGAGTTCAAATAGATAAGGAATTGAA
130 TGTATGCATGACTCGTATACATTGATGTAAGTAAAAGCTTGAGTTCAAATAGATAAGGAACTAAA
* * * *
53992870 GGCTGGTGCATTGGGTATACGACTTTTGTAATATGTAGCGTCATTCACAATAGTGAAATTCATTA
195 GGTTGATGCATTGGGTATACGACTTTTGTAATATGTAGCGTCATTCACAATAATGGAATTCATTA
* * *
53992935 CCTGAGACATAGGTAAATGATATCCCTTCATTAGCAA-TACATGGTTGATAAAAAAAGTAAAAGT
260 CCTGAGACATAGGTAAATGATATCCTTTCATT-GGAATTACATGGTTGAT--AAAAAGTAAACGT
* * *
53992999 GGCCATGGGTTGTTCGTCTTTGATA-AGAATGG
322 GGCCA-GGGGTGTTCGTCTTTGTTATA-AATGA
* * * * * * *
53993031 ATGTGACT--CTGCACCGACGGTGCATTAGACTGGACCTAAGAAGAAGAGATCCTGAATCCATTT
1 ATGTGACTGACTGGACTGACAGTACATTAGACTAGACCTAAGAAGAAGAGATCCTAAATCCGTTT
* * * * * * * *
53993094 TTGGATTTATTTACTTGCGACATTTAAAGTATGACATACCTTAATCCTGAGTGGATAATAGGCTA
66 ATGGATTTATTCACTTGTGACATTCAAAGTGTGGCATACCTTAATCCTAAGTGGATGAT-GGCTA
*
53993159 TGTATGCATGACTCGTATACATTGATGTAAGTAAAAGCTTGAGTTCAAATAGATAAGGAACTGAA
130 TGTATGCATGACTCGTATACATTGATGTAAGTAAAAGCTTGAGTTCAAATAGATAAGGAACTAAA
* * * * * * *
53993224 GGCTGTTGTATTGGGTATATGATTTTTGTAATATGTAGCGTCATTCACAATAGTGGAATTCATTG
195 GGTTGATGCATTGGGTATACGACTTTTGTAATATGTAGCGTCATTCACAATAATGGAATTCATTA
* ** * ** ** * *
53993289 CCTGAGATATAATTAAATGATATCCTTTCATTGGCATTACAAAGTTTTTAAAAAGTAAACATTGC
260 CCTGAGACATAGGTAAATGATATCCTTTCATTGGAATTACATGGTTGATAAAAAGTAAACGTGGC
* * *
53993354 CATGGGTCGTTCGTCTTTGTGATGAATGA
325 CAGGGGT-GTTCGTCTTTGTTATAAATGA
* ** * * * *
53993383 ATGTGGCTGGTTAGACTGACAGTACATTAGATTAGACGTAAGAAGAAGATATCCTAAATCCGTTT
1 ATGTGACTGACTGGACTGACAGTACATTAGACTAGACCTAAGAAGAAGAGATCCTAAATCCGTTT
* *
53993448 ATGGATTTATTCACTTGTGACATTCAAAGTGTGGCATACCTTAATACTGAGTGGATGATAGGCTA
66 ATGGATTTATTCACTTGTGACATTCAAAGTGTGGCATACCTTAATCCTAAGTGGATGAT-GGCTA
* * * *
53993513 TGTATGCATGACTCGTATACATTGATATAAGTAAAAGCCTGAGTTCAAATAAATAAGGAATTAAA
130 TGTATGCATGACTCGTATACATTGATGTAAGTAAAAGCTTGAGTTCAAATAGATAAGGAACTAAA
* ** *
53993578 GGTTG-TGCATTGGGTATACAACTTTTACAATATGTAACGTCATTCACAATAATGGAATTCATTA
195 GGTTGATGCATTGGGTATACGACTTTTGTAATATGTAGCGTCATTCACAATAATGGAATTCATTA
* * **
53993642 CCTAAGACATAGGTAAATGATATCCTTTCATTGGAATTACATGGTTGATAAAATGTATGCGTGGC
260 CCTGAGACATAGGTAAATGATATCCTTTCATTGGAATTACATGGTTGATAAAAAGTAAACGTGGC
* *
53993707 CACGGGGTGTTCATATTTGTTATAAATGA
325 CA-GGGGTGTTCGTCTTTGTTATAAATGA
* * * *
53993736 ATGTGACTAACTGGACTGATAGTACATTAGACTAGACCTAAGAACAAGAGATCCTAAGTCC-TCT
1 ATGTGACTGACTGGACTGACAGTACATTAGACTAGACCTAAGAAGAAGAGATCCTAAATCCGT-T
* * * * *
53993800 TATGAAGTTATTCACTTGTGAGATTAAAAGTGTGGCATAACTTAATCCTAAGTGGATGATGGACT
65 TATGGATTTATTCACTTGTGACATTCAAAGTGTGGCATACCTTAATCCTAAGTGGATGATGG-CT
* * * *
53993865 ATGTATGCATGATTCGTATACTTTTATGTAAGTAAAAGCTTGAGTTCAAATGGATAAGGAACTAA
129 ATGTATGCATGACTCGTATACATTGATGTAAGTAAAAGCTTGAGTTCAAATAGATAAGGAACTAA
** * * * * * * * * * *
53993930 AATTTGATGCATTGGCTGTATGACTTCTGTAGTATGTAGCATCATTTAAAATAATGTATTTCA-T
194 AGGTTGATGCATTGGGTATACGACTTTTGTAATATGTAGCGTCATTCACAATAATGGAATTCATT
* * * ** * *
53993994 ATCCTGAGACATTGGTAAATTATATCCTTTCATTGGAATTACATGATTGAGGAAAAGTAAAAGTA
259 A-CCTGAGACATAGGTAAATGATATCCTTTCATTGGAATTACATGGTTGATAAAAAGTAAACGTG
* * * *
53994059 GCCACGTGTTGTTCGTCTTTGTGATGAATGA
323 GCCA-GGGGTGTTCGTCTTTGTTATAAATGA
53994090 CTTGATTACT
Statistics
Matches: 874, Mismatches: 174, Indels: 24
0.82 0.16 0.02
Matches are distributed among these distances:
351 3 0.00
352 41 0.05
353 292 0.33
354 530 0.61
356 8 0.01
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (352 bp):
ATGTGACTGACTGGACTGACAGTACATTAGACTAGACCTAAGAAGAAGAGATCCTAAATCCGTTT
ATGGATTTATTCACTTGTGACATTCAAAGTGTGGCATACCTTAATCCTAAGTGGATGATGGCTAT
GTATGCATGACTCGTATACATTGATGTAAGTAAAAGCTTGAGTTCAAATAGATAAGGAACTAAAG
GTTGATGCATTGGGTATACGACTTTTGTAATATGTAGCGTCATTCACAATAATGGAATTCATTAC
CTGAGACATAGGTAAATGATATCCTTTCATTGGAATTACATGGTTGATAAAAAGTAAACGTGGCC
AGGGGTGTTCGTCTTTGTTATAAATGA
Found at i:53994075 original size:707 final size:707
Alignment explanation
Indices: 53992714--53994089 Score: 1705
Period size: 707 Copynumber: 1.9 Consensus size: 707
53992704 GATTGGACCC
* * * *
53992714 AAGAAGAAGAGATCCTAAATCCGTTTATGGATTTATTCACTTGTGACATTCTATGTTTGGCGTAC
1 AAGAAGAAGAGATCCTAAATCCGTTTATGGATTTATTCACTTGTGACATTCAAAGTGTGGCATAC
* * ** * *
53992779 CTTAATCCTAAGTGGATGGCTGACTATGTATGTGTGACTCATATACACTAACGTAAGTAAAATAA
66 CTTAATACTAAGTGGATGGATGACTATGTATGCATGACTCATATACACTAACATAAGTAAAAGAA
* * * ** *
53992844 TGAGTTCAAATAGATAAGGAATTGAAGGCTGGTGCATTGGGTATACGACTTTTGTAATATGTAGC
131 TGAGTTCAAATAAATAAGGAATTAAAGGCTGGTGCATTGGGTATACAACTTTTACAATATGTAAC
* *
53992909 GTCATTCACAATAGTGAAATTCATTACCTGAGACATAGGTAAATGATATCCCTTCATTAGCAATA
196 GTCATTCACAATAATGAAATTCATTACCTAAGACATAGGTAAATGATATCCCTTCATTAGCAATA
* * * * *
53992974 CATGGTTGATAAAAAAAGTAAAAGTGGCCATGGGTTGTTCGTCTTTGATAAGAATGGATGTGACT
261 CATGGTTGAT-AAAAAAGTAAAAGTGGCCACGGGGTGTTCATATTTGATAAGAATGAATGTGACT
* * * * * * *
53993039 CTGCACCGACGGTGCATTAGACTGGACCTAAGAAGAAGAGATCCTGAATCCATTTTTGGATTTAT
325 CTGCACCGACAGTACATTAGACTAGACCTAAGAACAAGAGATCCTGAATCCATTTATGAAGTTAT
* * * *
53993104 TTACTTGCGACATTTAAAGTATGACATACCTTAATCCTGAGTGGATAATAGGCTATGTATGCATG
390 TCACTTGCGACATTAAAAGTATGACATAACTTAATCCTAAGTGGATAATAGGCTATGTATGCATG
* * * *
53993169 ACTCGTATACATTGATGTAAGTAAAAGCTTGAGTTCAAATAGATAAGGAACTGAAGGCTGTTGTA
455 ACTCGTATACATTGATGTAAGTAAAAGCTTGAGTTCAAATAGATAAGGAACTAAAAGCTGATGCA
* * * * * * *
53993234 TTGGGTATATGATTTTTGTAATATGTAGCGTCATTCACAATAGTGGAATTCATTGCCTGAGATAT
520 TTGGCTATATGACTTCTGTAATATGTAGCATCATTCAAAATAATGGAATTCATTGCCTGAGACAT
* * * * * *
53993299 AATTAAATGATATCCTTTCATTGGCATTACAAAGTTTTTAAAAAGTAAACATTGCCATGGGTCGT
585 AAGTAAATGATATCCTTTCATTGGAATTACAAAGTATTGAAAAAGTAAACATAGCCACGGGTCGT
53993364 TCGTCTTTGTGATGAATGAATGTGGCTGGTTAGACTGACAGTACATTAGATTAGACGT
650 TCGTCTTTGTGATGAATGAATGTGGCTGGTTAGACTGACAGTACATTAGATTAGACGT
*
53993422 AAGAAGAAGATATCCTAAATCCGTTTATGGATTTATTCACTTGTGACATTCAAAGTGTGGCATAC
1 AAGAAGAAGAGATCCTAAATCCGTTTATGGATTTATTCACTTGTGACATTCAAAGTGTGGCATAC
* * * * * * *
53993487 CTTAATACTGAGTGGAT-GATAGGCTATGTATGCATGACTCGTATACATTGATATAAGTAAAAGC
66 CTTAATACTAAGTGGATGGAT-GACTATGTATGCATGACTCATATACACTAACATAAGTAAAAGA
* *
53993551 CTGAGTTCAAATAAATAAGGAATTAAAGG-TTGTGCATTGGGTATACAACTTTTACAATATGTAA
130 ATGAGTTCAAATAAATAAGGAATTAAAGGCTGGTGCATTGGGTATACAACTTTTACAATATGTAA
* * *
53993615 CGTCATTCACAATAATGGAATTCATTACCTAAGACATAGGTAAATGATATCCTTTCATT-GGAAT
195 CGTCATTCACAATAATGAAATTCATTACCTAAGACATAGGTAAATGATATCCCTTCATTAGCAA-
* *** *
53993679 TACATGGTTGAT-AAAATGTATGCGTGGCCACGGGGTGTTCATATTTGTTATA-AATGAATGTGA
259 TACATGGTTGATAAAAAAGTAAAAGTGGCCACGGGGTGTTCATATTTGATA-AGAATGAATGTGA
* * *
53993742 CTAACTGGACTGATAGTACATTAGACTAGACCTAAGAACAAGAGATCCT-AAGTCC-TCTTATGA
323 CT--CTGCACCGACAGTACATTAGACTAGACCTAAGAACAAGAGATCCTGAA-TCCAT-TTATGA
* * * * *
53993805 AGTTATTCACTTGTGAGATTAAAAGTGTGGCATAACTTAATCCTAAGTGGATGAT-GGACTATGT
384 AGTTATTCACTTGCGACATTAAAAGTATGACATAACTTAATCCTAAGTGGATAATAGG-CTATGT
* * * * **
53993869 ATGCATGATTCGTATACTTTTATGTAAGTAAAAGCTTGAGTTCAAATGGATAAGGAACTAAAATT
448 ATGCATGACTCGTATACATTGATGTAAGTAAAAGCTTGAGTTCAAATAGATAAGGAACTAAAAGC
* * * * *
53993934 TGATGCATTGGCTGTATGACTTCTGTAGTATGTAGCATCATTTAAAATAATGTATTTCATAT-CC
513 TGATGCATTGGCTATATGACTTCTGTAATATGTAGCATCATTCAAAATAATGGAATTCAT-TGCC
** * *
53993998 TGAGACATTGGTAAATTATATCCTTTCATTGGAATTAC-ATG-ATTGAGGAAAAGTAAA-AGTAG
577 TGAGACATAAGTAAATGATATCCTTTCATTGGAATTACAAAGTATTGA--AAAAGTAAACA-TAG
* *
53994060 CCACGTGTTGTTCGTCTTTGTGATGAATGA
639 CCACGGGTCGTTCGTCTTTGTGATGAATGA
53994090 CTTGATTACT
Statistics
Matches: 562, Mismatches: 94, Indels: 25
0.83 0.14 0.04
Matches are distributed among these distances:
705 44 0.08
706 12 0.02
707 371 0.66
708 135 0.24
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (707 bp):
AAGAAGAAGAGATCCTAAATCCGTTTATGGATTTATTCACTTGTGACATTCAAAGTGTGGCATAC
CTTAATACTAAGTGGATGGATGACTATGTATGCATGACTCATATACACTAACATAAGTAAAAGAA
TGAGTTCAAATAAATAAGGAATTAAAGGCTGGTGCATTGGGTATACAACTTTTACAATATGTAAC
GTCATTCACAATAATGAAATTCATTACCTAAGACATAGGTAAATGATATCCCTTCATTAGCAATA
CATGGTTGATAAAAAAGTAAAAGTGGCCACGGGGTGTTCATATTTGATAAGAATGAATGTGACTC
TGCACCGACAGTACATTAGACTAGACCTAAGAACAAGAGATCCTGAATCCATTTATGAAGTTATT
CACTTGCGACATTAAAAGTATGACATAACTTAATCCTAAGTGGATAATAGGCTATGTATGCATGA
CTCGTATACATTGATGTAAGTAAAAGCTTGAGTTCAAATAGATAAGGAACTAAAAGCTGATGCAT
TGGCTATATGACTTCTGTAATATGTAGCATCATTCAAAATAATGGAATTCATTGCCTGAGACATA
AGTAAATGATATCCTTTCATTGGAATTACAAAGTATTGAAAAAGTAAACATAGCCACGGGTCGTT
CGTCTTTGTGATGAATGAATGTGGCTGGTTAGACTGACAGTACATTAGATTAGACGT
Found at i:54009673 original size:26 final size:26
Alignment explanation
Indices: 54009644--54009696 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
54009634 AAACTATAAC
54009644 TCATATCTCACATATTATTCAATTCA
1 TCATATCTCACATATTATTCAATTCA
54009670 TCATATCTCACATATTATTCAATTCA
1 TCATATCTCACATATTATTCAATTCA
54009696 T
1 T
54009697 ACCTTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (26 bp):
TCATATCTCACATATTATTCAATTCA
Found at i:54010022 original size:43 final size:43
Alignment explanation
Indices: 54009975--54010099 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
54009965 ATCACATATC
* * * *
54009975 GATGCCACTGTCCCAGACAGGGTCTTACACGAAATCA-ATTAA
1 GATGCCAATGTCCTAGACATGGTCTTACACGAAATCACAATAA
*
54010017 TGATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAATAA
1 -GATGCCAATGTCCTAGACATGGTCTTACACGAAATCACAATAA
* * *
54010061 AATGCCAATGTCCTAGACATGGTCTTACATGTAATCACA
1 GATGCCAATGTCCTAGACATGGTCTTACACGAAATCACA
54010100 TCTCGATAAC
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
43 70 0.95
44 4 0.05
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
GATGCCAATGTCCTAGACATGGTCTTACACGAAATCACAATAA
Found at i:54020266 original size:93 final size:93
Alignment explanation
Indices: 54020154--54020325 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
54020144 CGCCCATAAG
* *
54020154 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54020219 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
54020247 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54020312 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
54020326 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:54020322 original size:46 final size:46
Alignment explanation
Indices: 54020147--54020322 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
54020137 TGTAACCCGC
* * *
54020147 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
54020193 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
54020243 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
54020286 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
54020323 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:54022722 original size:15 final size:15
Alignment explanation
Indices: 54022698--54022744 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
54022688 AGGAAACCGA
54022698 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
54022713 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
54022727 AATAAAGAAA-CCAAG
1 -ATAAAGAAATCCAAG
54022742 ATA
1 ATA
54022745 CGATACTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.60, C:0.13, G:0.15, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:54025800 original size:93 final size:93
Alignment explanation
Indices: 54025688--54025859 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
54025678 CGCCCATAAG
* *
54025688 CGAACTCGGACTCAACTCAACGAGCTCGGTCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
54025753 ACGAGTTTGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
54025781 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54025846 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
54025860 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:54025856 original size:46 final size:46
Alignment explanation
Indices: 54025681--54025856 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
54025671 TGTAACCCGC
* * *
54025681 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGTCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
54025727 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
54025777 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
54025820 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
54025857 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:54028212 original size:16 final size:17
Alignment explanation
Indices: 54028180--54028212 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
54028170 TATAAGATAC
*
54028180 TTGTGATATATAATATT
1 TTGTGATATAAAATATT
54028197 TTGTGAT-TAAAATATT
1 TTGTGATATAAAATATT
54028213 GATTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (17 bp):
TTGTGATATAAAATATT
Found at i:54030024 original size:14 final size:14
Alignment explanation
Indices: 54030005--54030038 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
54029995 GCCCAAAGTG
*
54030005 GATGATATGATTAT
1 GATGATATGACTAT
*
54030019 GATGATATTACTAT
1 GATGATATGACTAT
54030033 GATGAT
1 GATGAT
54030039 GAAAGTCGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (14 bp):
GATGATATGACTAT
Found at i:54030924 original size:15 final size:15
Alignment explanation
Indices: 54030904--54030941 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
54030894 ATATCGTATC
54030904 TTGGATTTTTCTATT
1 TTGGATTTTTCTATT
**
54030919 TTGGATTCCTCTATT
1 TTGGATTTTTCTATT
54030934 TTGG-TTTT
1 TTGGATTTT
54030942 CTTGTCATCT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.63
Consensus pattern (15 bp):
TTGGATTTTTCTATT
Found at i:54034150 original size:45 final size:44
Alignment explanation
Indices: 54034078--54034163 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 44
54034068 GAACTATGTG
54034078 ATTTGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATTTGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGAC
*
54034122 ATTTGAACTCATTGAGTTGTGGTTTGAGTTCATGATATATGT
1 ATTTGAACTCA-TGAGTTGTGGTCTGAGTTCATGATATATGT
54034164 TCCACACGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 11 0.28
45 29 0.73
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.42
Consensus pattern (44 bp):
ATTTGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGAC
Found at i:54035226 original size:22 final size:22
Alignment explanation
Indices: 54035201--54035244 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
54035191 ATTTGCTAAG
*
54035201 AATGTGTCTTAAGAAAGGATGC
1 AATGTGTCTTAAGAAAAGATGC
54035223 AATGTGTCTTAAGAAAAGATGC
1 AATGTGTCTTAAGAAAAGATGC
54035245 TTTATCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (22 bp):
AATGTGTCTTAAGAAAAGATGC
Found at i:54036372 original size:27 final size:27
Alignment explanation
Indices: 54036331--54036503 Score: 256
Period size: 27 Copynumber: 6.4 Consensus size: 27
54036321 TGGATAAGTT
54036331 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
54036358 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
54036385 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
54036412 ATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
54036439 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
54036466 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
54036493 GTAAAATTACC
1 GTAGAATTACC
54036504 ATTTTTCCCC
Statistics
Matches: 130, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 130 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:54036548 original size:27 final size:26
Alignment explanation
Indices: 54036504--54036557 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
54036494 TAAAATTACC
*
54036504 ATTTTTCCCCTAGGGTGTTAAATGACT
1 ATTTTGCCCCTAGGGTG-TAAATGACT
* *
54036531 ATTTTGCCCCTCGTGTGTAAATGACT
1 ATTTTGCCCCTAGGGTGTAAATGACT
54036557 A
1 A
54036558 ACTTGTGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (26 bp):
ATTTTGCCCCTAGGGTGTAAATGACT
Found at i:54037286 original size:27 final size:26
Alignment explanation
Indices: 54037234--54037292 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
54037224 CCATATATAT
*
54037234 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
54037260 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
54037287 ATATCT
1 ATATCT
54037293 AGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:54044077 original size:22 final size:22
Alignment explanation
Indices: 54044050--54044172 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
54044040 ATGTGCATAT
54044050 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
54044072 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
*
54044096 TATGTGATAAGGCCAAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* *
54044119 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
54044141 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
54044166 ATGTGAT
1 ATGTGAT
54044173 GAATATGAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 32
0.62 0.10 0.27
Matches are distributed among these distances:
22 24 0.33
23 17 0.23
24 16 0.22
25 16 0.22
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:54044094 original size:47 final size:47
Alignment explanation
Indices: 54044034--54044218 Score: 289
Period size: 47 Copynumber: 3.9 Consensus size: 47
54044024 GATAATTGTG
**
54044034 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
54044081 ATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
54044128 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
54044175 ATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
54044219 AATATATGTA
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:54044473 original size:37 final size:37
Alignment explanation
Indices: 54044423--54044535 Score: 190
Period size: 37 Copynumber: 3.1 Consensus size: 37
54044413 GGAAATATAT
*
54044423 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
54044460 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
54044497 TCCGGGTAAGACCCGATAATTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
54044534 TC
1 TC
54044536 TGAGCTAAAG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:54050620 original size:22 final size:22
Alignment explanation
Indices: 54050592--54050713 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
54050582 TTCCACATCC
54050592 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
54050614 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
54050638 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
54050661 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
54050685 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
54050708 ATCACA
1 ATCACA
54050714 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:54050627 original size:47 final size:47
Alignment explanation
Indices: 54050564--54051211 Score: 912
Period size: 47 Copynumber: 13.6 Consensus size: 47
54050554 CCCTTCGGGA
* * *
54050564 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
54050611 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
54050658 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
54050705 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
54050752 CTTATCACACATACT-CA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA-TACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
54050799 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
54050846 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
54050893 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
54050944 CTTTTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
54050991 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
54051040 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
54051087 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
54051136 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
54051185 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
54051212 TATTCAAATA
Statistics
Matches: 562, Mismatches: 27, Indels: 24
0.92 0.04 0.04
Matches are distributed among these distances:
46 2 0.00
47 374 0.67
49 143 0.25
51 42 0.07
52 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:54050737 original size:25 final size:24
Alignment explanation
Indices: 54050708--54050785 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 24
54050698 ATTCGGCCTT
54050708 ATCACACATACACATGTTCACATTC
1 ATCACACATAC-CATGTTCACATTC
* * *
54050733 ATCACA-TTGGCCA--TTCAGCCTT-
1 ATCACACAT-ACCATGTTCA-CATTC
54050755 ATCACACATACTCATGTTCACATTC
1 ATCACACATAC-CATGTTCACATTC
54050780 ATCACA
1 ATCACA
54050786 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.32, G:0.06, T:0.29
Consensus pattern (24 bp):
ATCACACATACCATGTTCACATTC
Found at i:54050984 original size:145 final size:143
Alignment explanation
Indices: 54050578--54051211 Score: 887
Period size: 145 Copynumber: 4.4 Consensus size: 143
54050568 TCACATTTAT
* *
54050578 ACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCAC-ATATATACACTTTCACATTCATC
1 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATATACACTTTCACATTCATC
* * *
54050642 ACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCT
66 ACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTAGGCCT
54050707 TATCAC-ACATAC
131 TATCACAACATAC
* *
54050719 ACA-TGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATA-CT-CA-TGTTCACATTC
1 ACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ATATATACACT-TTCACATTC
* * *
54050780 ATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTTGG
63 ATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTAGG
54050845 CCTTATCAC-ACATAC
128 CCTTATCACAACATAC
54050860 ACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACACTTTCACATT
1 ACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC--A-ATATATACACTTTCACATT
* *
54050924 CATCACATTGGCCATTCGGCCTTTTCACATATATACACT-TTCACATTCATCACATCGGCCATTA
62 CATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTA
* *
54050988 GGCCTTATCACATATATAT
126 GGCCTTATCACA-ACATAC
* *
54051007 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATC
1 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATATACACTTTCACATTCATC
*
54051071 ACATTGGCCATTAGGCCTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTAGG
66 ACATTGGCCATTCGGCCTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTAGG
* *
54051135 CCTTATCACATATATAT
128 CCTTATCACA-ACATAC
*
54051152 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATT
1 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATATACACTTTCACATT
54051212 TATTCAAATA
Statistics
Matches: 457, Mismatches: 21, Indels: 26
0.91 0.04 0.05
Matches are distributed among these distances:
140 2 0.00
141 166 0.36
142 1 0.00
143 52 0.11
144 1 0.00
145 191 0.42
146 2 0.00
147 41 0.09
148 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (143 bp):
ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATATACACTTTCACATTCATC
ACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTAGGCCT
TATCACAACATAC
Found at i:54052731 original size:56 final size:56
Alignment explanation
Indices: 54052664--54052779 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
54052654 AGTTTATTGT
54052664 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
*
54052720 CCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
54052776 CCAT
1 CCAT
54052780 CATCCCTTGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
Found at i:54059425 original size:12 final size:13
Alignment explanation
Indices: 54059408--54059439 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
54059398 ATAGCACATT
54059408 TCAAAAC-ATGCA
1 TCAAAACTATGCA
54059420 TCAAAACTATGCA
1 TCAAAACTATGCA
54059433 -CAAAACT
1 TCAAAACT
54059440 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:54061307 original size:93 final size:93
Alignment explanation
Indices: 54061195--54061367 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
54061185 AACTGTTACA
* * *
54061195 TTATCAATACAACCTATTTCAATATGTATTTTAACTACCATGAATCACATACAAAGCTTGACTCA
1 TTATCAATACAACCCATTTCAATATGTATTTTAACTACCATCAATCACACACAAAGCTTGACTCA
54061260 TAAATCATTTATTAGCCACATATCATAC
66 TAAATCATTTATTAGCCACATATCATAC
54061288 TTATCAATACAACCCATTTCAATATGTATTTTAACTACCATCAATCACACACAAAGCTTGACTCA
1 TTATCAATACAACCCATTTCAATATGTATTTTAACTACCATCAATCACACACAAAGCTTGACTCA
54061353 TAAATCATTTATTAG
66 TAAATCATTTATTAG
54061368 TCATTCACTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (93 bp):
TTATCAATACAACCCATTTCAATATGTATTTTAACTACCATCAATCACACACAAAGCTTGACTCA
TAAATCATTTATTAGCCACATATCATAC
Found at i:54063381 original size:46 final size:45
Alignment explanation
Indices: 54063326--54063586 Score: 181
Period size: 46 Copynumber: 5.6 Consensus size: 45
54063316 TTATTTGTGT
*
54063326 GCTAGTGTAAGATATGTCTGGGACATGCATCGGCCAAAGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAAAG-ATGAGA
* * * * *
54063372 GCCAGTGTAAGACCATGTTTAGGACATGGCATCGG-CATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--AAGATGAGA
* * * * *
54063420 GCTAGTGTAAGACATGTTTGGGACATACATTGACCTCAAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-AAAGATG-AGA
* * *
54063466 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTG-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-AAGATGAGA
* * **
54063511 TC-AGTGTAAGACCATGTCTAGGACATGGCATCGG-CACGGTTATGTGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAAAG--A--TGAGA
*
54063560 GCTAGTGTAAGACCATGTCTAGGACAT
1 GCTAGTGTAAGA-CATGTCTGGGACAT
54063587 TACGTCGGCC
Statistics
Matches: 169, Mismatches: 29, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
44 10 0.06
45 15 0.09
46 63 0.37
47 28 0.17
48 26 0.15
49 3 0.02
50 24 0.14
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAAAGATGAGA
Done.